Construct: ORF TRCN0000477261
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF013686.1_s317c1
- Derived from:
- ccsbBroadEn_06693
- DNA Barcode:
- TTCGGCAAACACGATGGTGTCGAG
- Epitope Tag:
- V5
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PCDH9 (5101)
Vector Information:
- Vector Backbone:
- pLX_317
- Pol II Cassette 1:
- SV40-PuroR
- Pol II Cassette 2:
- EF1a-TRCN0000477261
- Selection Marker:
- PuroR
- Visible Reporter:
- n/a
- Epitope Tag:
- V5
Current transcripts matched by this ORF:
| Taxon | Gene | Symbol | Description | Transcript | Nuc. Match %[?]A simple nucleotide-based global alignment percentage, calculated as follows: total nt. matches ---------------------------------- aligned length (incl. gaps) |
Prot. Match %[?]A simple amino acid-based global alignment percentage, calculated as follows: total aa. matches ---------------------------------- aligned length (incl. gaps) |
Match Diffs[?]This field may contain sequence annotations in HGVS format. For more information about HGVS annotations, please refer to the HGVS Quick Reference Guide. | |
|---|---|---|---|---|---|---|---|---|
| 1 | human | 5101 | PCDH9 | protocadherin 9 | NM_203487.3 | 99.9% | 100% | 234T>A;1530G>T;1638C>T |
| 2 | human | 5101 | PCDH9 | protocadherin 9 | XM_017020619.2 | 99.9% | 100% | 234T>A;1530G>T;1638C>T |
| 3 | human | 5101 | PCDH9 | protocadherin 9 | NM_020403.5 | 97.1% | 97.2% | (many diffs) |
| 4 | human | 5101 | PCDH9 | protocadherin 9 | NM_001318372.2 | 96.5% | 96.6% | (many diffs) |
| 5 | human | 5101 | PCDH9 | protocadherin 9 | NM_001318373.2 | 93.7% | 93.8% | (many diffs) |
| 6 | human | 5101 | PCDH9 | protocadherin 9 | XM_017020620.2 | 85.1% | 84.3% | (many diffs) |
| 7 | human | 5101 | PCDH9 | protocadherin 9 | XM_011535099.2 | 83.8% | 81.3% | (many diffs) |
| 8 | human | 5101 | PCDH9 | protocadherin 9 | NM_001318374.2 | 82.5% | 82.2% | (many diffs) |
| 9 | human | 5101 | PCDH9 | protocadherin 9 | XM_005266408.4 | 82% | 81.9% | (many diffs) |
| 10 | human | 5101 | PCDH9 | protocadherin 9 | XM_017020621.2 | 82% | 81.9% | (many diffs) |
| 11 | mouse | 211712 | Pcdh9 | protocadherin 9 | NM_001081377.2 | 92.4% | 98.2% | (many diffs) |
| 12 | mouse | 211712 | Pcdh9 | protocadherin 9 | XM_006518774.3 | 92.4% | 98.2% | (many diffs) |
| 13 | mouse | 211712 | Pcdh9 | protocadherin 9 | NM_001271798.1 | 90% | 96% | (many diffs) |
| 14 | mouse | 211712 | Pcdh9 | protocadherin 9 | NM_001346722.1 | 89.3% | 94.8% | (many diffs) |
| 15 | mouse | 211712 | Pcdh9 | protocadherin 9 | NM_001271800.1 | 86.8% | 92.6% | (many diffs) |
| 16 | mouse | 211712 | Pcdh9 | protocadherin 9 | XM_006518776.3 | 86.8% | 92.6% | (many diffs) |
| 17 | mouse | 211712 | Pcdh9 | protocadherin 9 | NM_001271799.1 | 77.4% | 82.6% | (many diffs) |
| 18 | mouse | 211712 | Pcdh9 | protocadherin 9 | XM_006518777.3 | 76% | 81.1% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 3780
- ORF length:
- 3711
- Sequence:
-
1 tcttccattt caggtgtcgt gaggctagca tcgattgatc aacaagtttg tacaaaaaag 61 ttggcaccat ggacctgagg gatttttacc tgttggctgc tctgattgcc tgtttaaggc 121 tggattccgc aatagctcaa gaacttattt acactattag agaggaattg cctgaaaatg 181 tgcccatagg aaacatacca aaggatctga acatttctca catcaatgct gccacaggga 241 ccagcgccag ccttgtctac agactggttt ctaaagctgg ggatgcccct ttggtgaaag 301 tatccagcag cactggggaa attttcacaa cctccaacag aatagacaga gaaaaactct 361 gtgctggcgc ctcatatgct gaggagaatg agtgtttctt tgaacttgag gtggtgatcc 421 tccccaatga tttcttcagg ctgatcaaaa taaaaataat tgtcaaggat accaatgata 481 atgcccccat gtttccatct cctgtcatca atatttccat tccagaaaac actttgatca 541 acagccgctt tccaattcca tcagcaacag atcctgacac aggcttcaat ggtgtacagc 601 attatgaatt gttaaatggg cagagtgttt ttggactgga tatcgtggaa actccagagg 661 gagagaagtg gccacaactg attgttcagc aaaacttgga tagagaacag aaagatacct 721 atgtgatgaa aatcaaagta gaggatggag gcactccaca gaaatccagt acggccatac 781 tgcaggtcac agtaagtgat gtaaatgaca acaggccagt gtttaaagag ggtcaagtgg 841 aggtgcatat tccagagaat gctcccgtag gtacctctgt aattcagctc catgccactg 901 atgcagatat aggcagtaat gctgaaatcc ggtacatttt tggtgcccag gtcgcccctg 961 caaccaaaag actctttgct ttaaataata ctactgggct gattacagtt cagaggtcct 1021 tagatagaga ggagacagcc attcacaaag tgacagtgct ggctagtgac ggcagctcca 1081 ctcctgctcg agcaacggtt accatcaatg tcaccgatgt aaatgataac cctcctaata 1141 tagacctcag gtacattata agtcccatca atggcaccgt gtatttatct gagaaagatc 1201 ctgtcaatac aaagattgcc ctaattacag tttcagataa ggacacagat gtgaatggca 1261 aagtgatctg ttttattgaa agagaggtcc catttcattt gaaggcggta tatgacaacc 1321 aatatttgtt agagacctct tctttgttgg actatgaggg caccaaagaa ttcagcttta 1381 aaattgttgc ctctgattct gggaagccca gtttaaatca gactgccctg gtaagggtta 1441 agcttgagga tgaaaatgac aacccaccaa ttttcaacca gcctgtaatt gagctgtcag 1501 tttctgaaaa caaccgacgt gggttatact taacaactat tagtgccaca gatgaagaca 1561 gtgggaaaaa tgcagacatt gtttatcagc ttggacctaa tgcctccttc tttgatctgg 1621 accgaaaaac aggagttttg acagcctcca gagtatttga cagagaagaa caagaacgat 1681 tcatttttac agtaactgcc agggataatg ggacccctcc cctccaaagc caagcggctg 1741 tgattgttac tgttctggat gagaatgaca atagccccaa gtttactcat aatcattttc 1801 aattttttgt gtctgagaat ctgccaaagt atagtactgt gggggtaatc acagtgacag 1861 atgcagatgc tggagagaat aaagctgtga ctctttccat tctaaatgac aatgataatt 1921 ttgtgttgga tccctattct ggagtcataa agtcaaatgt ctcatttgat agagagcagc 1981 agagttccta cacttttgat gtcaaagcca ctgatggagg acaaccacct cgttcctcta 2041 ctgcaaaagt aactatcaac gtcatggatg tcaatgacaa cagcccagtt gtcatttctc 2101 caccgtctaa tacttccttt aagttggtgc ccctctcagc cattcctggc tccgtggtag 2161 cagaagtttt tgcagtggat gttgacactg gaatgaacgc tgaactaaag tatactatag 2221 tgagtggaaa caataaaggc ttattccgga ttgatccagt aacaggtaac attactctgg 2281 aagaaaaacc agcacctact gatgtgggat tgcatcgttt ggtggtcaac ataagtgacc 2341 tggggtaccc taagtctttg cacacgcttg tgcttgtatt cctttatgtt aacgacactg 2401 ctggaaatgc ctcctatatc tatgacttga tccgcaggac tatggagacc ccgttggaca 2461 ggaacatagg ggatagtagc caaccctatc aaaatgagga ctatctaacc atcatgattg 2521 ccatcatcgc cggtgccatg gtggtcattg ttgtgatctt cgtcaccgtt ctggtgcgct 2581 gtcgccatgc atcaaggttc aaagcagctc agaggagcaa gcaaggtgcc gaatggatgt 2641 ccccaaacca ggagaacaag caaaacaaga aaaagaaaag aaagaaaagg aagtctccca 2701 aaagctctct tttgaacttt gttactatcg aagagtccaa acccgatgat gcagttcatg 2761 aacctatcaa tgggacaata agcctgccgg ctgaactgga ggagcaaagt ataggaagat 2821 ttgactgggg cccggcacct ccaacaacat tcaagcctaa cagtcctgac ctggccaagc 2881 actacaaatc tgcttctcca cagcctgctt ttcatctcaa accagacact ccagtttccg 2941 tgaaaaagca ccacgtgatt caggaactcc ctttggacaa cacctttgtt gggggttgtg 3001 acaccctttc taaacgctct tccactagtt cagatcactt cagtgcctca gagtgcagtt 3061 cccaaggagg cttcaagaca aagggcccct tacacaccag acagtgtaac tcacacagca 3121 aaagtgacaa tattcctgtc actcctcaga aatgtcccag ctccacgggt ttccacattc 3181 aggagaatga agaaagccat tacgagtcgc agcgccgtgt tacgtttcat ctccctgatg 3241 gctcccagga aagctgcagt gacagtggtc taggagacca tgagccggtg ggtagtggaa 3301 ccctgatctc acaccctctt cctctggttc agccacagga cgaattctat gaccaggcct 3361 ctccggacaa gaggactgaa gcagatggca actctgatcc caactcTGAT GGGCCTTTGG 3421 GTCCCCGAGG ATTAGCTGAA GCTACAGAGA TGTGCACTCA AGAGTGCTTG GTTTTGGGTC 3481 ACTCTGATAA TTGCTGGATG CCTCCTGGCT TGGGTCCATA TCAACACCCC AAATCTCCTC 3541 TCTCAACCTT TGCACCCCAG AAAGAATGGG TGAAGAAGGA CAAGCTTGTG AATGGGCACA 3601 CCCTGACCAG AGCCTGGAAA GAAGACAGCA ACAGGAACCA GTTCAATGAC CGTAAGCAGT 3661 ATGGCTCCAA TGAAGGCCAT TTCAACAATG GCAGCCACAT GACAGACATT CCTCTGGCAA 3721 ATCTGAAGTC TTATAAGCAA GCAGGAGGTG CTACTGAGAG TCCTAAGGAG CACCAACTCT 3781 TGCCAACTTT CTTGTACAAA GTGGTTGATA TCGGTAAGCC TATCCCTAAC CCTCTCCTCG 3841 GTCTCGATTC TACGTAGTAA TGAACTAGTC CGTAACTTGA AAGTATTTCG ATTTCTTGGC 3901 TTTATATATC TTGTGGAAAG GACGATTCGG CAAACACGAT GGTGTCGAGA CGCGTTAAGT 3961 Cgacaatcaa cctctggatt acaaaatttg tgaaagatt