PROGNOS Summary for Huang_tnikb_Ranking-RVDs_5T

The danRer7 genome was searched for the TALEN pair targeting:
5'- TGTTATTTTCTCCCCT NN..NN ATTTTTGAGCTGGTGGA -3'

Using these RVDs:
Left:  01NN02NG03NG04NI05NG06NG07NG08NG09HD10NG11HD12HD13HD14HD15NG
Right: 01HD02HD03NI04HD05HD06NI07NN08HD09NG10HD11NI12NI13NI14NI15NI16NG

Up to 4 mismatches were allowed in each nuclease half-site.

Allowed spacing distances were: 13 14 15 16 17 18 19

Homodimers and heterodimers of the nucleases were included in the output

62 total sites were located
Mismatch Types
Genomic Regions
  0 and 0: 1
  2 and 3: 1
  3 and 4: 9
  4 and 4: 51
  Exons: 2
  Promoters: 2
  Introns: 19
  Intergenic: 39


The top 62 sites are ranked below according to a weighting of the RVD base preferences. All sites listed contain flanking 5' thymidines.
For the full output, click here.

This output will be deleted from the server one week after it is generated.  Please save your results.

Primer pairs were designed using the 400 bp of sequence on either side of the cleavage site to melt close to 60 °C

For easy visualization of cleavage on gels:
The smallest fragment will be longer than 130 bp, which is also the minimum separation distance between uncleaved and cleaved products.
The two cleavage products will be separated by a minimum size of 0 bp
To optimize assay conditions, the amplicons have a minimum length of 260 bp, a maximum length of 450 bp, and an optimal length of 270 bp.
Rank: 1	Homology Score: 50	RVD Match Score: 2	Left Half-Site RVD Score: 2.018	Right Half-Site RVD Score: 2.182
	Genomic Region: Exon	Closest Gene: tnikb	Caution! This site scores very closely to the intended nuclease target. The potential for cleavage at this site is of great concern.
Match Type: R15L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-CAAGC TCCACCAGCTCAAAAAT   GCCCGCAGGATCCTT    AGGGGAGAAAATAACA GAAGA-3'
	3'-GTTCG AGGTGGTCGAGTTTTTA   CGGGCGTCCTAGGAA    TCCCCTCTTTTATTGT CTTCT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 024-027401962
Forward Primer: 5'-GCTGAGGGGAACACCAAACATG-3' Tm: 59.258
Reverse Primer: 5'-CCAGTATTGCAGCCCTTGTAATACACTGTT-3' Tm: 60.058
Expected PCR Product Length: 350
Expected CelI Cleavage Product Sizes: 154, 196
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr24:27402090-27402137

Rank: 2	Homology Score: 13	RVD Match Score: 2.874	Left Half-Site RVD Score: 4.59	Right Half-Site RVD Score: 4.422
	Genomic Region: Intergenic	Closest Gene: cmtm6
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TCAGA TATTATTTTCTCTTCT     GCCACGCAGGAGC     AGGGACGAAAATAACA AAGTG-3'
	3'-AGTCT ATAATAAAAGAGAAGA     CGGTGCGTCCTCG     TCCCTGCTTTTATTGT TTCAC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 016-044051024
Forward Primer: 5'-GTGCTTAATGCACAGCGGCATC-3' Tm: 59.258
Reverse Primer: 5'-CAACCCTCACCCTAGTCTACC-3' Tm: 59.378
Expected PCR Product Length: 361
Expected CelI Cleavage Product Sizes: 205, 156
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr16:44051205-44051249

Rank: 3	Homology Score: 5	RVD Match Score: 2.944	Left Half-Site RVD Score: 5.726	Right Half-Site RVD Score: 3.827
	Genomic Region: Intron	Closest Gene: foxp3a
Match Type: L18L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTTTT TCTTCTTTTCTCTCTT  TCAACTTGTTTAGAGGCT   AGGGGTGGAAATAATA TTTGT-3'
	3'-AAAAA AGAAGAAAAGAGAGAA  AGTTGAACAAATCTCCGA   TCCCCACCTTTATTAT AAACA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 008-026575347
Forward Primer: 5'-GTCTTAAGGCCTTTCGATTGCAATGCAAAC-3' Tm: 60.058
Reverse Primer: 5'-GTGTGGGTGTTACCCAGCACT-3' Tm: 59.378
Expected PCR Product Length: 377
Expected CelI Cleavage Product Sizes: 247, 130
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr8:26575567-26575616

Rank: 4	Homology Score: 5	RVD Match Score: 3.026	Left Half-Site RVD Score: 5.44	Right Half-Site RVD Score: 4.572
	Genomic Region: Intergenic	Closest Gene: pop4
Match Type: L18L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GGTCT TCCTATTTTCTCTACT  TTGTGATATGAATGAAAA   AGGGTAGAACATAAGA GTGGA-3'
	3'-CCAGA AGGATAAAAGAGATGA  AACACTATACTTACTTTT   TCCCATCTTGTATTCT CACCT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 007-047515148
Forward Primer: 5'-GCACAGATCGTCTTATCCTCTCTC-3' Tm: 59.038
Reverse Primer: 5'-GGTCACTACTGCACAGGTACATG-3' Tm: 59.148
Expected PCR Product Length: 362
Expected CelI Cleavage Product Sizes: 138, 224
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr7:47515259-47515308

Rank: 5	Homology Score: 5	RVD Match Score: 3.07	Left Half-Site RVD Score: 4.865	Right Half-Site RVD Score: 5.427
	Genomic Region: Intergenic	Closest Gene: dcaf13
Match Type: L18L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TGTGC TTTTATTTTCTCCTCA  CTCGCGGCAAGTTCAGGC   ATGGGAGTATTTAACA AGATA-3'
	3'-ACACG AAAATAAAAGAGGAGT  GAGCGCCGTTCAAGTCCG   TACCCTCATAAATTGT TCTAT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 016-047429150
Forward Primer: 5'-CACTCCTCAACTATAGGGGTGG-3' Tm: 59.258
Reverse Primer: 5'-CACTGATGCCTGTCGACGACT-3' Tm: 59.378
Expected PCR Product Length: 372
Expected CelI Cleavage Product Sizes: 206, 166
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr16:47429329-47429378

Rank: 6	Homology Score: 5	RVD Match Score: 3.115	Left Half-Site RVD Score: 4.528	Right Half-Site RVD Score: 6.121
	Genomic Region: Intergenic	Closest Gene: cyp3c1
Match Type: L17L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTTTT TGTAAATTACTCCCCT   GATTCATGCAACGCATG   ATGGGACACAATAAAA AAGCA-3'
	3'-AAAAA ACATTTAATGAGGGGA   CTAAGTACGTTGCGTAC   TACCCTGTGTTATTTT TTCGT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 003-041144063
Forward Primer: 5'-CTGTGAATTGTGTGGAACCCTGC-3' Tm: 59.148
Reverse Primer: 5'-GGCAAAAGGCCAATAAAGTGTCCG-3' Tm: 59.038
Expected PCR Product Length: 396
Expected CelI Cleavage Product Sizes: 265, 131
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr3:41144302-41144350

Rank: 7	Homology Score: 2	RVD Match Score: 3.17	Left Half-Site RVD Score: 6.073	Right Half-Site RVD Score: 4.925
	Genomic Region: Intergenic	Closest Gene: jkamp
Match Type: L14L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-ACTGC TGCTATTTTCTCTCTC    CAAAGATGTTATTG     AGGGGAGAAAGGCATA TTTAA-3'
	3'-TGACG ACGATAAAAGAGAGAG    GTTTCTACAATAAC     TCCCCTCTTTCCGTAT AAATT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 017-014089806
Forward Primer: 5'-CTCTGTTATTTTCCCTCTCTGCCC-3' Tm: 59.038
Reverse Primer: 5'-CCCACCTGCCCCTGAAATCT-3' Tm: 59.508
Expected PCR Product Length: 270
Expected CelI Cleavage Product Sizes: 132, 138
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr17:14089913-14089958

Rank: 8	Homology Score: 2	RVD Match Score: 3.178	Left Half-Site RVD Score: 5.808	Right Half-Site RVD Score: 5.224
	Genomic Region: Intron	Closest Gene: ap2b1
Match Type: L14L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTTCT TGATATTTTCCCCTAT    AATTATTGAAAATA     AGTTAAGAAAATAATA ATAAT-3'
	3'-AAAGA ACTATAAAAGGGGATA    TTAATAACTTTTAT     TCAATTCTTTTATTAT TATTA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
No Primers
Primer Index: No Primers
Forward Primer: 5'-No Primers-3' Tm: No Primers
Reverse Primer: 5'-No Primers-3' Tm: No Primers
Expected PCR Product Length: No Primers
Expected CelI Cleavage Product Sizes: No Primers, No Primers
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr5:64771888-64771933

Rank: 9	Homology Score: 2	RVD Match Score: 3.191	Left Half-Site RVD Score: 4.726	Right Half-Site RVD Score: 6.454
	Genomic Region: Intergenic	Closest Gene: gpc1
Match Type: L16L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTAAT TATTATTTTCCCCACA   GATAAAAGGATAGTGA    AGAAAAGAAAATATCA AGGGG-3'
	3'-AATTA ATAATAAAAGGGGTGT   CTATTTTCCTATCACT    TCTTTTCTTTTATAGT TCCCC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 002-046852941
Forward Primer: 5'-GTGACCCCTGATGAATAAAGGGAC-3' Tm: 59.038
Reverse Primer: 5'-CAAAGGCTACCAAGGGTAACGC-3' Tm: 59.258
Expected PCR Product Length: 297
Expected CelI Cleavage Product Sizes: 167, 130
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr2:46853082-46853129

Rank: 10	Homology Score: 2	RVD Match Score: 3.207	Left Half-Site RVD Score: 4.963	Right Half-Site RVD Score: 6.304
	Genomic Region: Intron	Closest Gene: zgc:174650
Match Type: L14L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GTTGC TCCTCTTTACTCCCCT    CGTTCTCTTTAATT     AGGTCTGAAAAAAACA AACAT-3'
	3'-CAACG AGGAGAAATGAGGGGA    GCAAGAGAAATTAA     TCCAGACTTTTTTTGT TTGTA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 004-034644828
Forward Primer: 5'-CTTTCCACACTGAGGGCAGG-3' Tm: 59.508
Reverse Primer: 5'-CTGAAAACTGGGCTGACACGG-3' Tm: 59.378
Expected PCR Product Length: 407
Expected CelI Cleavage Product Sizes: 131, 276
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr4:34644934-34644979

Rank: 11	Homology Score: 2	RVD Match Score: 3.207	Left Half-Site RVD Score: 4.963	Right Half-Site RVD Score: 6.304
	Genomic Region: Intergenic	Closest Gene: zgc:174275
Match Type: L14L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GTTCC TCCTCTTTACTCCCCT    CATTATCTTCAATT     AGGTCTGAAAAAAACA TTAGT-3'
	3'-CAAGG AGGAGAAATGAGGGGA    GTAATAGAAGTTAA     TCCAGACTTTTTTTGT AATCA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 004-057253541
Forward Primer: 5'-GCTTGCCAAACTCTTTCCACACTG-3' Tm: 59.038
Reverse Primer: 5'-CTATACCTTCTATGTTAAGCGGCTTTGACAC-3' Tm: 59.958
Expected PCR Product Length: 372
Expected CelI Cleavage Product Sizes: 134, 238
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr4:57253650-57253695

Rank: 12	Homology Score: 2	RVD Match Score: 3.211	Left Half-Site RVD Score: 5.826	Right Half-Site RVD Score: 5.427
	Genomic Region: Intergenic	Closest Gene: pkmb
Match Type: L17L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CATGT TTTTATTATGTCCCAT   GATGCTTTGTGTAAATT   ATGGGAGTAGATTACA TGAAA-3'
	3'-GTACA AAAATAATACAGGGTA   CTACGAAACACATTTAA   TACCCTCATCTAATGT ACTTT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 025-030215268
Forward Primer: 5'-GCATTGTGGCAACAAGCTTTCGAC-3' Tm: 59.038
Reverse Primer: 5'-CTTATGTGTATCTGTGGCCAAAGCTCAATG-3' Tm: 60.058
Expected PCR Product Length: 420
Expected CelI Cleavage Product Sizes: 144, 276
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr25:30215386-30215434

Rank: 13	Homology Score: 2	RVD Match Score: 3.217	Left Half-Site RVD Score: 5.544	Right Half-Site RVD Score: 5.753
	Genomic Region: Intergenic	Closest Gene: enc1
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-ACATC TGTCATTATCTCAACT     GAAACACAAAGAC     AGGGCGGGAAATATCA GAGCT-3'
	3'-TGTAG ACAGTAATAGAGTTGA     CTTTGTGTTTCTG     TCCCGCCCTTTATAGT CTCGA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 022-010953992
Forward Primer: 5'-GTATTTTGGTCTTAGTAGTGCTTTGAAATGCGC-3' Tm: 59.758
Reverse Primer: 5'-GCCATGCCCCCTTAAAGATGC-3' Tm: 59.378
Expected PCR Product Length: 422
Expected CelI Cleavage Product Sizes: 282, 140
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr22:10954250-10954294

Rank: 14	Homology Score: 2	RVD Match Score: 3.222	Left Half-Site RVD Score: 5.565	Right Half-Site RVD Score: 5.764
	Genomic Region: Intron	Closest Gene: adck1
Match Type: L15L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTGGT TGTTCTTTTCAAACCT    CCAAAGTACAGAGTG    AGTAGAGAATATAAAA GGCGT-3'
	3'-AACCA ACAAGAAAAGTTTGGA    GGTTTCATGTCTCAC    TCATCTCTTATATTTT CCGCA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 017-017427769
Forward Primer: 5'-GTTTCGCCTCTCCTTTGAGGAC-3' Tm: 59.258
Reverse Primer: 5'-GCAGGTTGAGAGTGGGTGGT-3' Tm: 59.508
Expected PCR Product Length: 337
Expected CelI Cleavage Product Sizes: 198, 139
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr17:17427942-17427988

Rank: 15	Homology Score: 2	RVD Match Score: 3.241	Left Half-Site RVD Score: 5.705	Right Half-Site RVD Score: 5.33
	Genomic Region: Intron	Closest Gene: sema4ba
Match Type: L15R
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AGTCT TCTTATTTTCTCTTCA    TTGGGTGTTCATTGT   ATATTTTGGGTGGTGGA CAAGA-3'
	3'-TCAGA AGAATAAAAGAGAAGT    AACCCACAAGTAACA   TATAAAACCCACCACCT GTTCT-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 018-025634847
Forward Primer: 5'-GAGACTAAAAGAGAAGAGCTGGTAAAACAGG-3' Tm: 59.958
Reverse Primer: 5'-CTCCCCAGCTTCGCATATGTTTC-3' Tm: 59.148
Expected PCR Product Length: 289
Expected CelI Cleavage Product Sizes: 131, 158
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr18:25634952-25634999

Rank: 16	Homology Score: 2	RVD Match Score: 3.249	Left Half-Site RVD Score: 5.372	Right Half-Site RVD Score: 6.165
	Genomic Region: Intron	Closest Gene: LOC100003595
Match Type: L17L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CTTTC TATTATTTTTTCCCTA   TTATTCAACCTCCTTTT   AGGTGTCAAAATCACA GTTTT-3'
	3'-GAAAG ATAATAAAAAAGGGAT   AATAAGTTGGAGGAAAA   TCCACAGTTTTAGTGT CAAAA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 002-008682501
Forward Primer: 5'-CTACGGGCACTTTTATGTCCTTTGATTTCC-3' Tm: 60.058
Reverse Primer: 5'-GGAAATGACACTGATACTGTGTGACAGC-3' Tm: 60.298
Expected PCR Product Length: 450
Expected CelI Cleavage Product Sizes: 145, 305
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr2:8682620-8682668

Rank: 17	Homology Score: 2	RVD Match Score: 3.25	Left Half-Site RVD Score: 5.861	Right Half-Site RVD Score: 5.668
	Genomic Region: Intergenic	Closest Gene: sulf2l
Match Type: L18L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CGAAA TGATTTCTTCTCCACT  TCTCCGAAAGAGATGCAC   TGAGGAGAAAAGAAAA CACAA-3'
	3'-GCTTT ACTAAAGAAGAGGTGA  AGAGGCTTTCTCTACGTG   ACTCCTCTTTTCTTTT GTGTT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 023-015609480
Forward Primer: 5'-GTTTGACGGACAGTGTTTAGGAGG-3' Tm: 59.038
Reverse Primer: 5'-CGAGAGGGGGTATAAGGACAG-3' Tm: 59.378
Expected PCR Product Length: 375
Expected CelI Cleavage Product Sizes: 132, 243
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr23:15609585-15609634

Rank: 18	Homology Score: 2	RVD Match Score: 3.256	Left Half-Site RVD Score: 6.304	Right Half-Site RVD Score: 5.287
	Genomic Region: Intergenic	Closest Gene: N/A
Match Type: L14L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-ATGTT TGTTTTTTTCAGACCT    AATTAAAGAGAATG     AGGGGAGTAAAGAGAA GGAAC-3'
	3'-TACAA ACAAAAAAAGTCTGGA    TTAATTTCTCTTAC     TCCCCTCATTTCTCTT CCTTG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 296-000012696
Forward Primer: 5'-CTCTGAAAACTGGACTGACACGG-3' Tm: 59.148
Reverse Primer: 5'-ACTCTTTCCACACTGAGGGCAGG-3' Tm: 61.088
Expected PCR Product Length: 410
Expected CelI Cleavage Product Sizes: 280, 130
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - Zv9_NA296:12951-12996

Rank: 19	Homology Score: 2	RVD Match Score: 3.26	Left Half-Site RVD Score: 5.176	Right Half-Site RVD Score: 6.454
	Genomic Region: Intergenic	Closest Gene: diras1a
Match Type: L15L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GTAAC TCTTATTTTCAACACT    TTGAACCAACAAAGC    AGAGAAAAAGATAACA GTGAC-3'
	3'-CATTG AGAATAAAAGTTGTGA    AACTTGGTTGTTTCG    TCTCTTTTTCTATTGT CACTG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 011-007452947
Forward Primer: 5'-GGTGCATAGGATGGGAATCATCTG-3' Tm: 59.038
Reverse Primer: 5'-GAGTGGGTGTTGAGAGTGTTGATC-3' Tm: 59.038
Expected PCR Product Length: 371
Expected CelI Cleavage Product Sizes: 160, 211
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr11:7453082-7453128

Rank: 20	Homology Score: 2	RVD Match Score: 3.262	Left Half-Site RVD Score: 5.963	Right Half-Site RVD Score: 5.647
	Genomic Region: Intergenic	Closest Gene: nrp2b
Match Type: L15L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GCAAA TTTTCTTTGCTTCCCT    CTGTTAAACAGAAAT    TGGGGAAAAAGTAAAA CAAGG-3'
	3'-CGTTT AAAAGAAACGAAGGGA    GACAATTTGTCTTTA    ACCCCTTTTTCATTTT GTTCC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 009-014999443
Forward Primer: 5'-CTTCATGGAATGCCGGATGCC-3' Tm: 59.378
Reverse Primer: 5'-GGCCCATGTAGTCTCAGGATAAG-3' Tm: 59.148
Expected PCR Product Length: 391
Expected CelI Cleavage Product Sizes: 203, 188
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr9:14999621-14999667

Rank: 21	Homology Score: 2	RVD Match Score: 3.267	Left Half-Site RVD Score: 5.55	Right Half-Site RVD Score: 6.103
	Genomic Region: Intergenic	Closest Gene: bms1l
Match Type: L17L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-ACTAT TATTATTTTGTCACTT   TTCTTTACTGCTTTAAA   CGGTAAGATAATAACA CCAAT-3'
	3'-TGATA ATAATAAAACAGTGAA   AAGAAATGACGAAATTT   GCCATTCTATTATTGT GGTTA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 012-030852351
Forward Primer: 5'-TTGGACTGTGGGGGAAACCCAT-3' Tm: 59.258
Reverse Primer: 5'-GTCTTCAGTGTCACATGATCCCTC-3' Tm: 59.038
Expected PCR Product Length: 367
Expected CelI Cleavage Product Sizes: 130, 237
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr12:30852455-30852503

Rank: 22	Homology Score: 2	RVD Match Score: 3.27	Left Half-Site RVD Score: 6.312	Right Half-Site RVD Score: 5.376
	Genomic Region: Intergenic	Closest Gene: piwil2
Match Type: L19L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GACAC TGTTATTTTCTCGGAA  GAATGCAAAGGTCACTTAG  AGGGGAGAAAGAGAGA GAGAG-3'
	3'-CTGTG ACAATAAAAGAGCCTT  CTTACGTTTCCAGTGAATC  TCCCCTCTTTCTCTCT CTCTC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 005-018181209
Forward Primer: 5'-GGCCACCCTGATCACGATTAAC-3' Tm: 59.258
Reverse Primer: 5'-CAACTTCACACAAGCACATTCCGC-3' Tm: 59.038
Expected PCR Product Length: 292
Expected CelI Cleavage Product Sizes: 143, 149
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr5:18181325-18181375

Rank: 23	Homology Score: 5	RVD Match Score: 3.287	Left Half-Site RVD Score: 5.963	Right Half-Site RVD Score: 5.373
	Genomic Region: Intergenic	Closest Gene: pcdh15a
Match Type: R16L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-TTTTT TCTACCAGCCCGAAAAC  ATTTTCTCAATTTTAC    AGCAGAGAAAAGAACA TCATA-3'
	3'-AAAAA AGATGGTCGGGCTTTTG  TAAAAGAGTTAAAATG    TCGTCTCTTTTCTTGT AGTAT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 013-042252335
Forward Primer: 5'-CGTTGCCTGGTTTGATGATTCTCG-3' Tm: 59.038
Reverse Primer: 5'-GGGAGAAGTCGTGATTATGGGG-3' Tm: 59.258
Expected PCR Product Length: 277
Expected CelI Cleavage Product Sizes: 130, 147
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr13:42252439-42252487

Rank: 24	Homology Score: 5	RVD Match Score: 3.292	Left Half-Site RVD Score: 5.291	Right Half-Site RVD Score: 6.569
	Genomic Region: Intergenic	Closest Gene: zgc:110204
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AACCA TGTCATTTTTTTCCCT     TTCAGCAAGAAAG     AGCGATGAAAACAACA GAAAG-3'
	3'-TTGGT ACAGTAAAAAAAGGGA     AAGTCGTTCTTTC     TCGCTACTTTTGTTGT CTTTC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 014-004719194
Forward Primer: 5'-AGCATGTTGAAATCAATAAATAGCCTACTACTGTCC-3' Tm: 59.498
Reverse Primer: 5'-GCTGAGGCGCTGGACAAAAAC-3' Tm: 59.378
Expected PCR Product Length: 284
Expected CelI Cleavage Product Sizes: 130, 154
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr14:4719300-4719344

Rank: 25	Homology Score: 2	RVD Match Score: 3.292	Left Half-Site RVD Score: 5.839	Right Half-Site RVD Score: 5.987
	Genomic Region: Intron	Closest Gene: ube4b
Match Type: L16L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TGTCC TGTTAGCTTATCCCAT   CATTACAGCGATTGAA    AAGGGTGACAATGACA AGCCA-3'
	3'-ACAGG ACAATCGAATAGGGTA   GTAATGTCGCTAACTT    TTCCCACTGTTACTGT TCGGT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 023-029796044
Forward Primer: 5'-ACGACGGCAAGTAAGTGGTCC-3' Tm: 59.378
Reverse Primer: 5'-CTCAGTCCTGAAGAGGTAAGGC-3' Tm: 59.258
Expected PCR Product Length: 270
Expected CelI Cleavage Product Sizes: 133, 137
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr23:29796151-29796198

Rank: 26	Homology Score: 2	RVD Match Score: 3.293	Left Half-Site RVD Score: 5.806	Right Half-Site RVD Score: 6.029
	Genomic Region: Intergenic	Closest Gene: zgc:103697
Match Type: L15L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AAACT TATTTTTTTCTTCTCT    CTGTTAAACAACAAT    TGGGAAAAAAATAAAA AAGGG-3'
	3'-TTTGA ATAAAAAAAGAAGAGA    GACAATTTGTTGTTA    ACCCTTTTTTTATTTT TTCCC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 005-037597563
Forward Primer: 5'-CTTGCCTGTCTTGCCTTGTTAACC-3' Tm: 59.038
Reverse Primer: 5'-CACAGAAACGCCAACCGACC-3' Tm: 59.508
Expected PCR Product Length: 317
Expected CelI Cleavage Product Sizes: 186, 131
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr5:37597724-37597770

Rank: 27	Homology Score: 2	RVD Match Score: 3.297	Left Half-Site RVD Score: 5.978	Right Half-Site RVD Score: 5.881
	Genomic Region: Intergenic	Closest Gene: pex3
Match Type: L18L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GTTTG TGTTTTATTCTACACT  CGCTCGCACATGGAAGGT   AAGTGATAAAATAAAA AATAC-3'
	3'-CAAAC ACAAAATAAGATGTGA  GCGAGCGTGTACCTTCCA   TTCACTATTTTATTTT TTATG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 020-037794081
Forward Primer: 5'-GACGTATGGGAGATCTGCCCT-3' Tm: 59.378
Reverse Primer: 5'-GCTTGGTCATTTGTTTTGGGTGAACTATCC-3' Tm: 60.058
Expected PCR Product Length: 438
Expected CelI Cleavage Product Sizes: 256, 182
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr20:37794310-37794359

Rank: 28	Homology Score: 2	RVD Match Score: 3.306	Left Half-Site RVD Score: 5.493	Right Half-Site RVD Score: 6.454
	Genomic Region: Intergenic	Closest Gene: adpgk
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AGGTT TCTTTTTTTAACCCCT     TTATGAAAAACAA     AAGGAAAAAAATGACA TAATT-3'
	3'-TCCAA AGAAAAAAATTGGGGA     AATACTTTTTGTT     TTCCTTTTTTTACTGT ATTAA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 025-002697030
Forward Primer: 5'-TGTGGCTCAGAGACACACACACAT-3' Tm: 59.038
Reverse Primer: 5'-GCGACCCCTGATTAATAAAGGGAC-3' Tm: 59.038
Expected PCR Product Length: 309
Expected CelI Cleavage Product Sizes: 130, 179
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr25:2697136-2697180

Rank: 29	Homology Score: 2	RVD Match Score: 3.306	Left Half-Site RVD Score: 6.207	Right Half-Site RVD Score: 5.728
	Genomic Region: Intergenic	Closest Gene: tpst1
Match Type: L17L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AAAAG TTTTATTTTGTCACTT   TTGACTAACTTGTTGAA   AGGGCAACAAATAATA ATTTG-3'
	3'-TTTTC AAAATAAAACAGTGAA   AACTGATTGAACAACTT   TCCCGTTGTTTATTAT TAAAC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 015-019562303
Forward Primer: 5'-CCTAGAGCTGGTGTCTTGCTTTC-3' Tm: 59.148
Reverse Primer: 5'-GGTCCATGCAGGTTCCAATAGG-3' Tm: 59.258
Expected PCR Product Length: 309
Expected CelI Cleavage Product Sizes: 162, 147
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr15:19562439-19562487

Rank: 30	Homology Score: 2	RVD Match Score: 3.31	Left Half-Site RVD Score: 6.029	Right Half-Site RVD Score: 5.925
	Genomic Region: Promoter	Closest Gene: ft1
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CAATA TTTTATTTTCCCTTCT     TCCATGCAACAGT     TATGGATAAAATAACA CTCAC-3'
	3'-GTTAT AAAATAAAAGGGAAGA     AGGTACGTTGTCA     ATACCTATTTTATTGT GAGTG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 019-006276406
Forward Primer: 5'-GATGGGACAGTATGGACGCG-3' Tm: 59.508
Reverse Primer: 5'-GACGTCCACAGCAGGGAATTTG-3' Tm: 59.258
Expected PCR Product Length: 388
Expected CelI Cleavage Product Sizes: 238, 150
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr19:6276620-6276664

Rank: 31	Homology Score: 5	RVD Match Score: 3.315	Left Half-Site RVD Score: 6.368	Right Half-Site RVD Score: 5.639
	Genomic Region: Intron	Closest Gene: tnnc1a
Match Type: L18L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GGTGG TGGAATTTTTTCCCTT  TTCAAAACCTAAAACCCA   AGAGGAGAAAAAACCA ACAAA-3'
	3'-CCACC ACCTTAAAAAAGGGAA  AAGTTTTGGATTTTGGGT   TCTCCTCTTTTTTGGT TGTTT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 023-004000336
Forward Primer: 5'-GCGCAAGATTCTGACAAGCTTTCG-3' Tm: 59.038
Reverse Primer: 5'-GCATGCGCTTGACGCAGAAGT-3' Tm: 59.378
Expected PCR Product Length: 270
Expected CelI Cleavage Product Sizes: 133, 137
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr23:4000442-4000491

Rank: 32	Homology Score: 2	RVD Match Score: 3.318	Left Half-Site RVD Score: 5.493	Right Half-Site RVD Score: 6.053
	Genomic Region: Exon	Closest Gene: dmd
Match Type: L17R
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTGAG TCTCTTTTTCTCACCT   TGGCTGTGAGGGAAGGA  GTTGTTGAGCTGCTCGA TGACG-3'
	3'-AACTC AGAGAAAAAGAGTGGA   ACCGACACTCCCTTCCT  CAACAACTCGACGAGCT ACTGC-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 001-010011820
Forward Primer: 5'-CCATGGGAGCTCACTGTCCT-3' Tm: 59.508
Reverse Primer: 5'-GCAGGACAACTTCCAGTGGC-3' Tm: 59.508
Expected PCR Product Length: 432
Expected CelI Cleavage Product Sizes: 283, 149
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr1:10012076-10012125

Rank: 33	Homology Score: 2	RVD Match Score: 3.325	Left Half-Site RVD Score: 5.433	Right Half-Site RVD Score: 6.162
	Genomic Region: Intergenic	Closest Gene: rchy1
Match Type: L18R
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CTTTA TAATATTTTTTGCCCT  GTTAAATAATTTATTTTT  ATTATTCAGCTGTGGGA ACGGG-3'
	3'-GAAAT ATTATAAAAAACGGGA  CAATTTATTAAATAAAAA  TAATAAGTCGACACCCT TGCCC-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 005-009640443
Forward Primer: 5'-CGCAATTCGGACTTTATAACTTGCAATTCTGAC-3' Tm: 59.758
Reverse Primer: 5'-GTGTTGGGACAAGATGAAAGAATAGTTTGGC-3' Tm: 59.958
Expected PCR Product Length: 402
Expected CelI Cleavage Product Sizes: 236, 166
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr5:9640652-9640702

Rank: 34	Homology Score: 2	RVD Match Score: 3.325	Left Half-Site RVD Score: 5.433	Right Half-Site RVD Score: 6.162
	Genomic Region: Intergenic	Closest Gene: tal2
Match Type: L18R
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CTTTA TAATATTTTTTGCCCT  GTTAAATAATTTATTTTT  ATTATTCAGCTGTGGGA ACGGG-3'
	3'-GAAAT ATTATAAAAAACGGGA  CAATTTATTAAATAAAAA  TAATAAGTCGACACCCT TGCCC-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 005-009701307
Forward Primer: 5'-CGCAATTCGGACTTTATAACTTGCAATTCTGAC-3' Tm: 59.758
Reverse Primer: 5'-GTTGGGACAAGATGAAGGAATAGTTTGGC-3' Tm: 60.178
Expected PCR Product Length: 379
Expected CelI Cleavage Product Sizes: 215, 164
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr5:9701495-9701545

Rank: 35	Homology Score: 2	RVD Match Score: 3.332	Left Half-Site RVD Score: 6.377	Right Half-Site RVD Score: 5.744
	Genomic Region: Intergenic	Closest Gene: zmiz1a
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-GTTGA TTTTTTTTTCTCTCCG     TTAAACAGAAATT     GGGGGGGAAATAAACA GTGGG-3'
	3'-CAACT AAAAAAAAAGAGAGGC     AATTTGTCTTTAA     CCCCCCCTTTATTTGT CACCC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
No Primers
Primer Index: No Primers
Forward Primer: 5'-No Primers-3' Tm: No Primers
Reverse Primer: 5'-No Primers-3' Tm: No Primers
Expected PCR Product Length: No Primers
Expected CelI Cleavage Product Sizes: No Primers, No Primers
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr13:30646772-30646816

Rank: 36	Homology Score: 2	RVD Match Score: 3.34	Left Half-Site RVD Score: 5.925	Right Half-Site RVD Score: 6.251
	Genomic Region: Intergenic	Closest Gene: mettl14
Match Type: L15L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TACAA TGTCATTTTCTATCAT    ATTTTGTATGATGAG    AGCGTAAAAAATTACA AGTTT-3'
	3'-ATGTT ACAGTAAAAGATAGTA    TAAAACATACTACTC    TCGCATTTTTTAATGT TCAAA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 001-019043719
Forward Primer: 5'-CGCAAGAAGGGGCGAATTTAACC-3' Tm: 59.148
Reverse Primer: 5'-CCGCCATTTGGGCCAAATTTTCC-3' Tm: 59.148
Expected PCR Product Length: 293
Expected CelI Cleavage Product Sizes: 145, 148
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr1:19043839-19043885

Rank: 37	Homology Score: 5	RVD Match Score: 3.342	Left Half-Site RVD Score: 5.639	Right Half-Site RVD Score: 6.569
	Genomic Region: Intron	Closest Gene: lpp
Match Type: L14L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CCTGT TGTGTTTTTTTCCCCT    CTTACTTTTTAATT     AGAGCTGAAAACAACA TGACC-3'
	3'-GGACA ACACAAAAAAAGGGGA    GAATGAAAAATTAA     TCTCGACTTTTGTTGT ACTGG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 006-028310006
Forward Primer: 5'-GTGTCGGTGTGAACTTCCAGTAG-3' Tm: 59.148
Reverse Primer: 5'-CGAAAACAAGCTCAAGGCCACC-3' Tm: 59.258
Expected PCR Product Length: 279
Expected CelI Cleavage Product Sizes: 149, 130
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr6:28310130-28310175

Rank: 38	Homology Score: 2	RVD Match Score: 3.343	Left Half-Site RVD Score: 6.073	Right Half-Site RVD Score: 6.126
	Genomic Region: Intergenic	Closest Gene: spcs3
Match Type: L16L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AAATG TGTAAATTTCTTCTCT   CAGTTAAACGGAAATT    GGGGGAAAAATAAACA GAGGG-3'
	3'-TTTAC ACATTTAAAGAAGAGA   GTCAATTTGCCTTTAA    CCCCCTTTTTATTTGT CTCCC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. Warning! The sequence of this region of the genome is poorly mapped. 
Primer Index: 001-039182385
Forward Primer: 5'-GCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTC-3' Tm: 59.498
Reverse Primer: 5'-GGTGGGGGGTTATAGTTTTGTAGC-3' Tm: 59.038
Expected PCR Product Length: 306
Expected CelI Cleavage Product Sizes: 162, 144
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr1:39182521-39182568

Rank: 39	Homology Score: 2	RVD Match Score: 3.352	Left Half-Site RVD Score: 6.126	Right Half-Site RVD Score: 6.134
	Genomic Region: Intergenic	Closest Gene: LOC559950
Match Type: L17L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TCCCC TGTTTATTTTTCCCCC   CATTTTCTGTCTAACGG   AGAGCAGAAAATTTCA ACACA-3'
	3'-AGGGG ACAAATAAAAAGGGGG   GTAAAAGACAGATTGCC   TCTCGTCTTTTAAAGT TGTGT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
No Primers
Primer Index: No Primers
Forward Primer: 5'-No Primers-3' Tm: No Primers
Reverse Primer: 5'-No Primers-3' Tm: No Primers
Expected PCR Product Length: No Primers
Expected CelI Cleavage Product Sizes: No Primers, No Primers
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr10:42410951-42410999

Rank: 40	Homology Score: 2	RVD Match Score: 3.362	Left Half-Site RVD Score: 5.6	Right Half-Site RVD Score: 5.815
	Genomic Region: Intergenic	Closest Gene: zgc:162928
Match Type: R14R
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-CCCAT TCCACAAGCTCCAACAG   ACCTTTGTTGTCGT    TTTTCTGAGCTGTTTGA ATTGG-3'
	3'-GGGTA AGGTGTTCGAGGTTGTC   TGGAAACAACAGCA    AAAAGACTCGACAAACT TAACC-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 024-019588664
Forward Primer: 5'-GCTCAGACGTTCCACAATCCAACA-3' Tm: 59.038
Reverse Primer: 5'-GTGTTGGGACAACATGAAGCAATTATGTGG-3' Tm: 60.058
Expected PCR Product Length: 357
Expected CelI Cleavage Product Sizes: 131, 226
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr24:19588769-19588816

Rank: 41	Homology Score: 2	RVD Match Score: 3.379	Left Half-Site RVD Score: 5.927	Right Half-Site RVD Score: 6.059
	Genomic Region: Intron	Closest Gene: magi2
Match Type: R15L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-TCATT TCCACCATTCGAAAAAT   GAAAAACTAAATGAA    AGTGGCAAAAATAAAA GAGAC-3'
	3'-AGTAA AGGTGGTAAGCTTTTTA   CTTTTTGATTTACTT    TCACCGTTTTTATTTT CTCTG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 004-021822817
Forward Primer: 5'-CCTTGCTCTGTTGCTCTAAACATCATTTAGGA-3' Tm: 59.848
Reverse Primer: 5'-CTTGACAGAAAAGCTGTGGCCTAG-3' Tm: 59.038
Expected PCR Product Length: 271
Expected CelI Cleavage Product Sizes: 139, 132
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr4:21822930-21822977

Rank: 42	Homology Score: 2	RVD Match Score: 3.38	Left Half-Site RVD Score: 6.567	Right Half-Site RVD Score: 5.425
	Genomic Region: Intron	Closest Gene: pygmb
Match Type: R13L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-TTGAC TCCACCTGATCAGAATT    AAAGCCTCATTGA     AGGAGAGAAATAAATA CATGA-3'
	3'-AACTG AGGTGGACTAGTCTTAA    TTTCGGAGTAACT     TCCTCTCTTTATTTAT GTACT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 007-024009350
Forward Primer: 5'-GGATTCTTGCTCCAAAGATCCCAG-3' Tm: 59.038
Reverse Primer: 5'-GCGATTACCACAGTGGAATGAACC-3' Tm: 59.038
Expected PCR Product Length: 314
Expected CelI Cleavage Product Sizes: 133, 181
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr7:24009458-24009503

Rank: 43	Homology Score: 2	RVD Match Score: 3.385	Left Half-Site RVD Score: 6.377	Right Half-Site RVD Score: 6.126
	Genomic Region: Intron	Closest Gene: ntm
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-ACATT TTTTTTTTTCTCTCCG     TTAAACAGAAGCT     GGGGGAAAAATAAACA AGGGG-3'
	3'-TGTAA AAAAAAAAAGAGAGGC     AATTTGTCTTCGA     CCCCCTTTTTATTTGT TCCCC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
No Primers
Primer Index: No Primers
Forward Primer: 5'-No Primers-3' Tm: No Primers
Reverse Primer: 5'-No Primers-3' Tm: No Primers
Expected PCR Product Length: No Primers
Expected CelI Cleavage Product Sizes: No Primers, No Primers
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr10:31372361-31372405

Rank: 44	Homology Score: 2	RVD Match Score: 3.385	Left Half-Site RVD Score: 6.162	Right Half-Site RVD Score: 5.422
	Genomic Region: Promoter	Closest Gene: tab2
Match Type: R17R
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-TAAAA TACCCCTGCTGAAAAAT  CCAGCTTAAACCAGCCT  AGGTTTTAGCTGGTTGA CCAGC-3'
	3'-ATTTT ATGGGGACGACTTTTTA  GGTCGAATTTGGTCGGA  TCCAAAATCGACCAACT GGTCG-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 020-001352095
Forward Primer: 5'-GTGAGCCGGATGCAAGTGTC-3' Tm: 59.508
Reverse Primer: 5'-TGTCCAGTTTAAACCAGGCTGGTC-3' Tm: 59.038
Expected PCR Product Length: 270
Expected CelI Cleavage Product Sizes: 135, 135
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr20:1352203-1352253

Rank: 45	Homology Score: 2	RVD Match Score: 3.39	Left Half-Site RVD Score: 6.09	Right Half-Site RVD Score: 6.45
	Genomic Region: Intergenic	Closest Gene: setd3
Match Type: L16L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TCATA TTTTATTTACTGCCTT   CTGTTTAATCGTTAAC    AGGACCGAAAAGAACA TTAAT-3'
	3'-AGTAT AAAATAAATGACGGAA   GACAAATTAGCAATTG    TCCTGGCTTTTCTTGT AATTA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 017-017908369
Forward Primer: 5'-TCTTGCTGCCGGAGCAGAG-3' Tm: 59.658
Reverse Primer: 5'-GATTCAGTTCAGTCATTTTTAAACCTGGCCC-3' Tm: 59.958
Expected PCR Product Length: 384
Expected CelI Cleavage Product Sizes: 138, 246
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr17:17908481-17908528

Rank: 46	Homology Score: 2	RVD Match Score: 3.39	Left Half-Site RVD Score: 6.196	Right Half-Site RVD Score: 5.861
	Genomic Region: Intron	Closest Gene: zgc:194578
Match Type: R15L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-ATCAA TACAATTGCTCAAAAAT   ATTCTTTTATATCTT    TGGGGATAAGAAAACA GTGTC-3'
	3'-TAGTT ATGTTAACGAGTTTTTA   TAAGAAAATATAGAA    ACCCCTATTCTTTTGT CACAG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
No Primers
Primer Index: No Primers
Forward Primer: 5'-No Primers-3' Tm: No Primers
Reverse Primer: 5'-No Primers-3' Tm: No Primers
Expected PCR Product Length: No Primers
Expected CelI Cleavage Product Sizes: No Primers, No Primers
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr19:11016703-11016750

Rank: 47	Homology Score: 2	RVD Match Score: 3.399	Left Half-Site RVD Score: 6.405	Right Half-Site RVD Score: 5.712
	Genomic Region: Intron	Closest Gene: rbm41
Match Type: R13L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-CACAG TTGACCAGCTCAGAAAA    TGACACTCAGAAG     AGGGAAGAAAAGTGCA GAGAT-3'
	3'-GTGTC AACTGGTCGAGTCTTTT    ACTGTGAGTCTTC     TCCCTTCTTTTCACGT CTCTA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 021-036802701
Forward Primer: 5'-GACCGCATTTTTCTCCTCCTCAC-3' Tm: 59.148
Reverse Primer: 5'-CCGGGTTTGTGCGTTTTAAGTCC-3' Tm: 59.148
Expected PCR Product Length: 308
Expected CelI Cleavage Product Sizes: 174, 134
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr21:36802850-36802895

Rank: 48	Homology Score: 5	RVD Match Score: 3.408	Left Half-Site RVD Score: 5.725	Right Half-Site RVD Score: 6.458
	Genomic Region: Intergenic	Closest Gene: zgc:85909
Match Type: L15R
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AGAAG TGTTTTTTTTTCTCCT    TGTTTGGCGATGAGT   TTCTTTGAGCTGCAGGA CACAT-3'
	3'-TCTTC ACAAAAAAAAAGAGGA    ACAAACCGCTACTCA   AAGAAACTCGACGTCCT GTGTA-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 017-004427364
Forward Primer: 5'-GGAGTCCGCAGAGTTTAACTGG-3' Tm: 59.258
Reverse Primer: 5'-GAAGTTTCCTGCTCGAGGAGCT-3' Tm: 59.258
Expected PCR Product Length: 387
Expected CelI Cleavage Product Sizes: 230, 157
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr17:4427568-4427615

Rank: 49	Homology Score: 2	RVD Match Score: 3.409	Left Half-Site RVD Score: 5.808	Right Half-Site RVD Score: 6.897
	Genomic Region: Intron	Closest Gene: cntfr
Match Type: L17L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TAAAA TGTTAATATTTACCCT   CCTAAAAGTTCAGAAAC   AGCAAAAAAAATAACA GGTAA-3'
	3'-ATTTT ACAATTATAAATGGGA   GGATTTTCAAGTCTTTG   TCGTTTTTTTTATTGT CCATT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 010-013532358
Forward Primer: 5'-CAAAGGGCTCACGGTTTGTCTTGT-3' Tm: 59.038
Reverse Primer: 5'-GGTTTTGTTTGCTGTTTCTTAAGTTTGAAGGGG-3' Tm: 59.758
Expected PCR Product Length: 445
Expected CelI Cleavage Product Sizes: 293, 152
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr10:13532625-13532673

Rank: 50	Homology Score: 2	RVD Match Score: 3.41	Left Half-Site RVD Score: 6.569	Right Half-Site RVD Score: 6.126
	Genomic Region: Intergenic	Closest Gene: pcdh19
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTGAA TGTTTTTTCCTTCCGT     TAAACAGAAATTG     GGGGGAAAAATAAACA GGAGG-3'
	3'-AACTT ACAAAAAAGGAAGGCA     ATTTGTCTTTAAC     CCCCCTTTTTATTTGT CCTCC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 014-041273544
Forward Primer: 5'-CCTGCCTAGTTACCCCAATTTGC-3' Tm: 59.148
Reverse Primer: 5'-GTGTTTCCATTACAGATTGTACAGCGGTTC-3' Tm: 60.058
Expected PCR Product Length: 345
Expected CelI Cleavage Product Sizes: 195, 150
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr14:41273715-41273759

Rank: 51	Homology Score: 2	RVD Match Score: 3.412	Left Half-Site RVD Score: 6.19	Right Half-Site RVD Score: 6.516
	Genomic Region: Intergenic	Closest Gene: calr
Match Type: L15L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TGTAC TGTTATTTTATCTTCA    TCATCAAACACACAA    AGAGAACAAAATATCA TCATT-3'
	3'-ACATG ACAATAAAATAGAAGT    AGTAGTTTGTGTGTT    TCTCTTGTTTTATAGT AGTAA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 022-004365783
Forward Primer: 5'-GGTGTTTGTGATGGTCAGAGATCC-3' Tm: 59.038
Reverse Primer: 5'-GAAGTAACTTGCACAACACTGCATTCAACG-3' Tm: 60.058
Expected PCR Product Length: 377
Expected CelI Cleavage Product Sizes: 241, 136
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr22:4365999-4366045

Rank: 52	Homology Score: 2	RVD Match Score: 3.412	Left Half-Site RVD Score: 6.507	Right Half-Site RVD Score: 6.199
	Genomic Region: Intergenic	Closest Gene: nr2f2
Match Type: L13L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CCCAC TGTTTATTTTTTCCCT     TCAATTTCTGTTT     AATGGAGAAAAAAAAA AATTC-3'
	3'-GGGTG ACAAATAAAAAAGGGA     AGTTAAAGACAAA     TTACCTCTTTTTTTTT TTAAG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 018-023875023
Forward Primer: 5'-CATTCTAGCCGGAAAAAAAAAAAAATTTTCTCCAGAGG-3' Tm: 59.358
Reverse Primer: 5'-CCTTAAGATGTATAGAAGTGTCGTGAAAATATCTAGTG-3' Tm: 59.358
Expected PCR Product Length: 428
Expected CelI Cleavage Product Sizes: 276, 152
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr18:23875275-23875319

Rank: 53	Homology Score: 2	RVD Match Score: 3.423	Left Half-Site RVD Score: 6.282	Right Half-Site RVD Score: 6.507
	Genomic Region: Intron	Closest Gene: gpd2
Match Type: L15L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TGCTG TGTTATTTGCTAAGCT    CCTGTATTTAAAAAA    AGAAGGGAAAAAAACA GCCAG-3'
	3'-ACGAC ACAATAAACGATTCGA    GGACATAAATTTTTT    TCTTCCCTTTTTTTGT CGGTC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 006-012302933
Forward Primer: 5'-TCTGTATATACGGCATGTATAGCACTGGAG-3' Tm: 60.058
Reverse Primer: 5'-TCCCCCCAAAAAGTAACTAGTCGC-3' Tm: 59.038
Expected PCR Product Length: 270
Expected CelI Cleavage Product Sizes: 134, 136
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr6:12303042-12303088

Rank: 54	Homology Score: 2	RVD Match Score: 3.429	Left Half-Site RVD Score: 6.525	Right Half-Site RVD Score: 6.307
	Genomic Region: Intron	Closest Gene: pgm2l1
Match Type: L16L
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-AACAC TTTTTTTTTCTCTCGT   AAATAAGTAAAATAAT    ATTAAAGAAAATAACA TCTGC-3'
	3'-TTGTG AAAAAAAAAGAGAGCA   TTTATTCATTTTATTA    TAATTTCTTTTATTGT AGACG-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 015-004995201
Forward Primer: 5'-CTCAACATTTTATCAGGTAATGCAATACCAGTGAC-3' Tm: 59.578
Reverse Primer: 5'-TGCCACGAAAGATTAAGGCCATTCTGC-3' Tm: 60.438
Expected PCR Product Length: 407
Expected CelI Cleavage Product Sizes: 277, 130
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr15:4995452-4995499

Rank: 55	Homology Score: 2	RVD Match Score: 3.446	Left Half-Site RVD Score: 6.088	Right Half-Site RVD Score: 6.377
	Genomic Region: Intron	Closest Gene: si:dkey-11f4.16
Match Type: R13L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-ACTCA TTCACAAGCTGAAAAAA    ATTACAAACTACC     AGGAGAGAAAAACAAA GAGAA-3'
	3'-TGAGT AAGTGTTCGACTTTTTT    TAATGTTTGATGG     TCCTCTCTTTTTGTTT CTCTT-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 009-000021675
Forward Primer: 5'-TTATCGGGGGTCGCCACAGT-3' Tm: 59.508
Reverse Primer: 5'-GCCTTGGTGCAAATATTACAGCCG-3' Tm: 59.038
Expected PCR Product Length: 298
Expected CelI Cleavage Product Sizes: 137, 161
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr9:21787-21832

Rank: 56	Homology Score: 2	RVD Match Score: 3.462	Left Half-Site RVD Score: 6.901	Right Half-Site RVD Score: 5.678
	Genomic Region: Intergenic	Closest Gene: fbxo30a
Match Type: R18L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-TGTGG TCCTCGTGGTCAAAAAT GACCACCATAGGAAACGA   ATGGGAGATAATCAAA AATAT-3'
	3'-ACACC AGGAGCACCAGTTTTTA CTGGTGGTATCCTTTGCT   TACCCTCTATTAGTTT TTATA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 017-007362226
Forward Primer: 5'-CAGGATCATTGGAATGGTCTAAAACTCAGTG-3' Tm: 59.958
Reverse Primer: 5'-CCCTTTTCGCAGTGCTGTACAAC-3' Tm: 59.148
Expected PCR Product Length: 338
Expected CelI Cleavage Product Sizes: 151, 187
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr17:7362350-7362400

Rank: 57	Homology Score: 2	RVD Match Score: 3.462	Left Half-Site RVD Score: 6.487	Right Half-Site RVD Score: 6.082
	Genomic Region: Intergenic	Closest Gene: N/A
Match Type: R18L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-CACTG TCGAGCAGCTCCAATAT TAAATCACAGCACATTCC   TGGGGAAAAAAAAAAA AAGTG-3'
	3'-GTGAC AGCTCGTCGAGGTTATA ATTTAGTGTCGTGTAAGG   ACCCCTTTTTTTTTTT TTCAC-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 163-000017005
Forward Primer: 5'-CGGTGTATAATGCTGGTGTAGCTC-3' Tm: 59.038
Reverse Primer: 5'-GCACCCTTTCTGTTGACTAAAGCC-3' Tm: 59.038
Expected PCR Product Length: 313
Expected CelI Cleavage Product Sizes: 144, 169
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - Zv9_NA163:17122-17172

Rank: 58	Homology Score: 2	RVD Match Score: 3.472	Left Half-Site RVD Score: 6.243	Right Half-Site RVD Score: 6.405
	Genomic Region: Intron	Closest Gene: pdlim5a
Match Type: L13R
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-CTCTG TGTTGTTTTCACCATT     AGTTATTTCTCCT    TTTTTTCAGCTGACGGA TGCCG-3'
	3'-GAGAC ACAACAAAAGTGGTAA     TCAATAAAGAGGA    AAAAAAGTCGACTGCCT ACGGC-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 005-008593040
Forward Primer: 5'-GTGGACGCGGATCGTTTTCATTC-3' Tm: 59.148
Reverse Primer: 5'-GCTTTAATCTTGTTCTGGGCCTCC-3' Tm: 59.038
Expected PCR Product Length: 340
Expected CelI Cleavage Product Sizes: 208, 132
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr5:8593223-8593268

Rank: 59	Homology Score: 2	RVD Match Score: 3.491	Left Half-Site RVD Score: 6.162	Right Half-Site RVD Score: 6.141
	Genomic Region: Intergenic	Closest Gene: zgc:195356
Match Type: R18R
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-TGCTG TCCAACAGCTGCAATAT TTGTCAAACTGTAGTGAG  TTTATTGATCTGCTGGA GTAAT-3'
	3'-ACGAC AGGTTGTCGACGTTATA AACAGTTTGACATCACTC  AAATAACTAGACGACCT CATTA-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 007-038203459
Forward Primer: 5'-GGATGCAGATGCTCAGTATCTCAG-3' Tm: 59.038
Reverse Primer: 5'-CTGTTCTTGTGAGCAAATGCGGC-3' Tm: 59.148
Expected PCR Product Length: 444
Expected CelI Cleavage Product Sizes: 189, 255
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr7:38203620-38203671

Rank: 60	Homology Score: 2	RVD Match Score: 3.507	Left Half-Site RVD Score: 6.073	Right Half-Site RVD Score: 6.831
	Genomic Region: Intergenic	Closest Gene: spag9a
Match Type: L13R
	           Left Nuclease
	         TGTTATTTTCTCCCCT
	5'-TTTTT TGTTAATTTTACCCTT     CACAAAAGACTTG    AATTATGAGCAGATGGA CAATT-3'
	3'-AAAAA ACAATTAAAATGGGAA     GTGTTTTCTGAAC    TTAATACTCGTCTACCT GTTAA-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 003-018061176
Forward Primer: 5'-GGTCCTCTCCTAACATTCCTTCTG-3' Tm: 59.038
Reverse Primer: 5'-GCTGCTGCTGACACATTCAGG-3' Tm: 59.378
Expected PCR Product Length: 423
Expected CelI Cleavage Product Sizes: 204, 219
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr3:18061355-18061400

Rank: 61	Homology Score: 2	RVD Match Score: 3.51	Left Half-Site RVD Score: 6.673	Right Half-Site RVD Score: 6.251
	Genomic Region: Intergenic	Closest Gene: zic3
Match Type: R16L
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-AGCTT TTCATCAGTTTAAAAAT  GTCCTTAAAGGCACAC    AAGGCTTAAAATAACA GTTCT-3'
	3'-TCGAA AAGTAGTCAAATTTTTA  CAGGAATTTCCGTGTG    TTCCGAATTTTATTGT CAAGA-5'
	                                                TCCCCTCTTTTATTGT
	                                                    Left Nuclease
Warning! Primer pair was generated using suboptimal parameters. 
Primer Index: 014-032838949
Forward Primer: 5'-GTGCGTCTTTACGGACTTGAATATATTTACCAG-3' Tm: 59.758
Reverse Primer: 5'-CACATTTTCTGGGTGTACTTCACATTTGGTTC-3' Tm: 59.848
Expected PCR Product Length: 395
Expected CelI Cleavage Product Sizes: 260, 135
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr14:32839183-32839231

Rank: 62	Homology Score: 2	RVD Match Score: 3.571	Left Half-Site RVD Score: 6.414	Right Half-Site RVD Score: 6.461
	Genomic Region: Intergenic	Closest Gene: nmrk2
Match Type: R15R
	          Right Nuclease
	         TCCACCAGCTCAAAAAT
	5'-TTTTT TCCTGCATCTCAGAAAT   CAACGGGCTTTATTA   ATCTTTGATCTAGTGAA AAAAG-3'
	3'-AAAAA AGGACGTAGAGTCTTTA   GTTGCCCGAAATAAT   TAGAAACTAGATCACTT TTTTC-5'
	                                               TAAAAACTCGACCACCT
	                                                   Right Nuclease
Primer pair generated using optimal parameters. 
Primer Index: 002-056190023
Forward Primer: 5'-GGTCAAATCCAACTGTTGGCTCATAAAGTG-3' Tm: 60.058
Reverse Primer: 5'-CCGGGTGACCAGGGACTATA-3' Tm: 59.508
Expected PCR Product Length: 278
Expected CelI Cleavage Product Sizes: 139, 139
In Silico PCR
View in Genome Browser, Chromosomal Coordinates - chr2:56190136-56190184

Plate format Oligo Order Form
Well
Name
Sequence
5' mods
Internal
Notes
Primer Plate #1
A1
024-027401962F
GCTGAGGGGAACACCAAACATG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A2
024-027401962R
CCAGTATTGCAGCCCTTGTAATACACTGTT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B1
016-044051024F
GTGCTTAATGCACAGCGGCATC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B2
016-044051024R
CAACCCTCACCCTAGTCTACC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C1
008-026575347F
GTCTTAAGGCCTTTCGATTGCAATGCAAAC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C2
008-026575347R
GTGTGGGTGTTACCCAGCACT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D1
007-047515148F
GCACAGATCGTCTTATCCTCTCTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D2
007-047515148R
GGTCACTACTGCACAGGTACATG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E1
016-047429150F
CACTCCTCAACTATAGGGGTGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E2
016-047429150R
CACTGATGCCTGTCGACGACT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F1
003-041144063F
CTGTGAATTGTGTGGAACCCTGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F2
003-041144063R
GGCAAAAGGCCAATAAAGTGTCCG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G1
017-014089806F
CTCTGTTATTTTCCCTCTCTGCCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G2
017-014089806R
CCCACCTGCCCCTGAAATCT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H1
No PrimersF
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
H2
No PrimersR
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
A3
002-046852941F
GTGACCCCTGATGAATAAAGGGAC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A4
002-046852941R
CAAAGGCTACCAAGGGTAACGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B3
004-034644828F
CTTTCCACACTGAGGGCAGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B4
004-034644828R
CTGAAAACTGGGCTGACACGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C3
004-057253541F
GCTTGCCAAACTCTTTCCACACTG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
C4
004-057253541R
CTATACCTTCTATGTTAAGCGGCTTTGACAC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
D3
025-030215268F
GCATTGTGGCAACAAGCTTTCGAC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D4
025-030215268R
CTTATGTGTATCTGTGGCCAAAGCTCAATG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E3
022-010953992F
GTATTTTGGTCTTAGTAGTGCTTTGAAATGCGC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
E4
022-010953992R
GCCATGCCCCCTTAAAGATGC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
F3
017-017427769F
GTTTCGCCTCTCCTTTGAGGAC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F4
017-017427769R
GCAGGTTGAGAGTGGGTGGT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G3
018-025634847F
GAGACTAAAAGAGAAGAGCTGGTAAAACAGG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
G4
018-025634847R
CTCCCCAGCTTCGCATATGTTTC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
H3
002-008682501F
CTACGGGCACTTTTATGTCCTTTGATTTCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H4
002-008682501R
GGAAATGACACTGATACTGTGTGACAGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A5
023-015609480F
GTTTGACGGACAGTGTTTAGGAGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A6
023-015609480R
CGAGAGGGGGTATAAGGACAG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B5
296-000012696F
CTCTGAAAACTGGACTGACACGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B6
296-000012696R
ACTCTTTCCACACTGAGGGCAGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C5
011-007452947F
GGTGCATAGGATGGGAATCATCTG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C6
011-007452947R
GAGTGGGTGTTGAGAGTGTTGATC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D5
009-014999443F
CTTCATGGAATGCCGGATGCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D6
009-014999443R
GGCCCATGTAGTCTCAGGATAAG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E5
012-030852351F
TTGGACTGTGGGGGAAACCCAT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E6
012-030852351R
GTCTTCAGTGTCACATGATCCCTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F5
005-018181209F
GGCCACCCTGATCACGATTAAC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F6
005-018181209R
CAACTTCACACAAGCACATTCCGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G5
013-042252335F
CGTTGCCTGGTTTGATGATTCTCG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G6
013-042252335R
GGGAGAAGTCGTGATTATGGGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H5
014-004719194F
AGCATGTTGAAATCAATAAATAGCCTACTACTGTCC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
H6
014-004719194R
GCTGAGGCGCTGGACAAAAAC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
A7
023-029796044F
ACGACGGCAAGTAAGTGGTCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A8
023-029796044R
CTCAGTCCTGAAGAGGTAAGGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B7
005-037597563F
CTTGCCTGTCTTGCCTTGTTAACC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B8
005-037597563R
CACAGAAACGCCAACCGACC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C7
020-037794081F
GACGTATGGGAGATCTGCCCT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C8
020-037794081R
GCTTGGTCATTTGTTTTGGGTGAACTATCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D7
025-002697030F
TGTGGCTCAGAGACACACACACAT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D8
025-002697030R
GCGACCCCTGATTAATAAAGGGAC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E7
015-019562303F
CCTAGAGCTGGTGTCTTGCTTTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E8
015-019562303R
GGTCCATGCAGGTTCCAATAGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F7
019-006276406F
GATGGGACAGTATGGACGCG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F8
019-006276406R
GACGTCCACAGCAGGGAATTTG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G7
023-004000336F
GCGCAAGATTCTGACAAGCTTTCG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G8
023-004000336R
GCATGCGCTTGACGCAGAAGT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H7
001-010011820F
CCATGGGAGCTCACTGTCCT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H8
001-010011820R
GCAGGACAACTTCCAGTGGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A9
005-009640443F
CGCAATTCGGACTTTATAACTTGCAATTCTGAC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
A10
005-009640443R
GTGTTGGGACAAGATGAAAGAATAGTTTGGC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
B9
005-009701307F
CGCAATTCGGACTTTATAACTTGCAATTCTGAC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
B10
005-009701307R
GTTGGGACAAGATGAAGGAATAGTTTGGC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
C9
No PrimersF
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
C10
No PrimersR
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
D9
001-019043719F
CGCAAGAAGGGGCGAATTTAACC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D10
001-019043719R
CCGCCATTTGGGCCAAATTTTCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E9
006-028310006F
GTGTCGGTGTGAACTTCCAGTAG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E10
006-028310006R
CGAAAACAAGCTCAAGGCCACC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F9
001-039182385F
GCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. Warning! The sequence of this region of the genome is poorly mapped. 
F10
001-039182385R
GGTGGGGGGTTATAGTTTTGTAGC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. Warning! The sequence of this region of the genome is poorly mapped. 
G9
No PrimersF
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
G10
No PrimersR
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
H9
024-019588664F
GCTCAGACGTTCCACAATCCAACA
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H10
024-019588664R
GTGTTGGGACAACATGAAGCAATTATGTGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A11
004-021822817F
CCTTGCTCTGTTGCTCTAAACATCATTTAGGA
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
A12
004-021822817R
CTTGACAGAAAAGCTGTGGCCTAG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
B11
007-024009350F
GGATTCTTGCTCCAAAGATCCCAG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B12
007-024009350R
GCGATTACCACAGTGGAATGAACC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C11
No PrimersF
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
C12
No PrimersR
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
D11
020-001352095F
GTGAGCCGGATGCAAGTGTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D12
020-001352095R
TGTCCAGTTTAAACCAGGCTGGTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E11
017-017908369F
TCTTGCTGCCGGAGCAGAG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
E12
017-017908369R
GATTCAGTTCAGTCATTTTTAAACCTGGCCC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
F11
No PrimersF
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
F12
No PrimersR
No Primers
Huang_tnikb_Ranking-RVDs_5T	No Primers
G11
021-036802701F
GACCGCATTTTTCTCCTCCTCAC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G12
021-036802701R
CCGGGTTTGTGCGTTTTAAGTCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H11
017-004427364F
GGAGTCCGCAGAGTTTAACTGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H12
017-004427364R
GAAGTTTCCTGCTCGAGGAGCT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
Primer Plate #2
A1
010-013532358F
CAAAGGGCTCACGGTTTGTCTTGT
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
A2
010-013532358R
GGTTTTGTTTGCTGTTTCTTAAGTTTGAAGGGG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
B1
014-041273544F
CCTGCCTAGTTACCCCAATTTGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B2
014-041273544R
GTGTTTCCATTACAGATTGTACAGCGGTTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C1
022-004365783F
GGTGTTTGTGATGGTCAGAGATCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C2
022-004365783R
GAAGTAACTTGCACAACACTGCATTCAACG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D1
018-023875023F
CATTCTAGCCGGAAAAAAAAAAAAATTTTCTCCAGAGG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
D2
018-023875023R
CCTTAAGATGTATAGAAGTGTCGTGAAAATATCTAGTG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
E1
006-012302933F
TCTGTATATACGGCATGTATAGCACTGGAG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E2
006-012302933R
TCCCCCCAAAAAGTAACTAGTCGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F1
015-004995201F
CTCAACATTTTATCAGGTAATGCAATACCAGTGAC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
F2
015-004995201R
TGCCACGAAAGATTAAGGCCATTCTGC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
G1
009-000021675F
TTATCGGGGGTCGCCACAGT
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
G2
009-000021675R
GCCTTGGTGCAAATATTACAGCCG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
H1
017-007362226F
CAGGATCATTGGAATGGTCTAAAACTCAGTG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
H2
017-007362226R
CCCTTTTCGCAGTGCTGTACAAC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
A3
163-000017005F
CGGTGTATAATGCTGGTGTAGCTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
A4
163-000017005R
GCACCCTTTCTGTTGACTAAAGCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B3
005-008593040F
GTGGACGCGGATCGTTTTCATTC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
B4
005-008593040R
GCTTTAATCTTGTTCTGGGCCTCC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C3
007-038203459F
GGATGCAGATGCTCAGTATCTCAG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
C4
007-038203459R
CTGTTCTTGTGAGCAAATGCGGC
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D3
003-018061176F
GGTCCTCTCCTAACATTCCTTCTG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
D4
003-018061176R
GCTGCTGCTGACACATTCAGG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
E3
014-032838949F
GTGCGTCTTTACGGACTTGAATATATTTACCAG
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
E4
014-032838949R
CACATTTTCTGGGTGTACTTCACATTTGGTTC
Huang_tnikb_Ranking-RVDs_5T	Warning! Primer pair was generated using suboptimal parameters. 
F3
002-056190023F
GGTCAAATCCAACTGTTGGCTCATAAAGTG
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters. 
F4
002-056190023R
CCGGGTGACCAGGGACTATA
Huang_tnikb_Ranking-RVDs_5T	Primer pair generated using optimal parameters.