Construct: ORF TRCN0000471031
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF014294.1_s317c1
- Derived from:
- ccsbBroadEn_14592
- DNA Barcode:
- CTCGCCGATCGATCGTCTTCTGCA
- Epitope Tag:
- V5
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- COL9A3 (1299)
Vector Information:
- Vector Backbone:
- pLX_317
- Pol II Cassette 1:
- SV40-PuroR
- Pol II Cassette 2:
- EF1a-TRCN0000471031
- 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 | 1299 | COL9A3 | collagen type IX alpha 3 chain | NM_001853.4 | 99.6% | 99.5% | (many diffs) |
| 2 | human | 1299 | COL9A3 | collagen type IX alpha 3 chain | XM_011528545.1 | 79% | 78.2% | (many diffs) |
| 3 | human | 1299 | COL9A3 | collagen type IX alpha 3 chain | XM_017027666.1 | 69.3% | 68.3% | (many diffs) |
| 4 | mouse | 12841 | Col9a3 | collagen, type IX, alpha 3 | NM_009936.2 | 83.2% | 90.7% | (many diffs) |
| 5 | mouse | 12841 | Col9a3 | collagen, type IX, alpha 3 | XM_006500553.3 | 78.7% | 85.8% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2118
- ORF length:
- 2052
- Sequence:
-
1 tcttccattt caggtgtcgt gaggctagca tcgattgatc aacaagtttg tacaaaaaag 61 ttggcatggc cgggccaagc gcgtgcgccc cgctcctgct cctgctcctg ctcggggagc 121 ttctggcggc cgccggggcg cagagagtgg gactccccgg cccccccggc cccccagggc 181 cgcccgggaa gcccggccag gacggcattg acggagaagc tggtcctcca ggtctgcctg 241 ggcccccggg accaaagggg gccccaggaa agccggggaa accaggagag gctgggctgc 301 cgggactgcc gggtgtggat ggtctgactg gacgagatgg accccctgga cccaagggtg 361 cccctgggga acggggaagt ctgggacccc cggggccgcc cgggctgggg ggcaaaggcc 421 tccctggacc ccccggagag gcaggagtga gcggcccccc aggtgggatc ggcctccgcg 481 gccccccggg accttctgga ctccccggcc tccctggtcc cccaggacct cccggacccc 541 ctggacaccc aggagtcctc cctgaaggcg ctactgacct tcagtgccca agtatctgcc 601 cgccaggtcc cccagggccc cctggaatgc cagggttcaa gggacccact ggctacaaag 661 gcgagcaggg ggaagtcggc aaggacggcg agaagggtga ccctggcccc cctgggcccg 721 ccggcctccc gggcagcgtg gggctgcagg gcccccgggg attacgagga ctgccagggc 781 cactcgggcc ccctggggac cggggtccca ttgggttccg agggccgcct gggatcccag 841 gagcgcctgg gaaagcgggt gaccgaggcg agaggggccc agaagggttc cgcggcccca 901 agggtgacct cggcagacct ggtcccaagg gaacccctgg catggccggg ccaagcggag 961 agccgggcat gccgggcaag gacggccaga atggcgtgcc aggactcgat ggccagaagg 1021 gagaggctgg tcgcaacggt gctccgggag agaagggccc caacgggctg ccgggcctcc 1081 ctggacgagc ggggtccaaa ggcgagaagg gagaacgggg cagagctggg gagctgggtg 1141 aggccggccc ctctggagag ccaggcgtcc ctggagatgc tggcatgcct ggggagcgcg 1201 gtgaggctgg ccaccggggc tcagcggggg ccctcggccc acaaggccct cccggagccc 1261 ctggtgtccg aggcttccag ggccagaagg gcagcatggg agaccccggc cttccaggcc 1321 cccagggcct ccgaggtgac gtgggcgacc ggggtccggg aggtgccgca ggccctaagg 1381 gagaccaggg tattgcaggt tccgacggtc ttcctgggga taaaggagaa ctgggtccca 1441 gcggcctggt cggacccaaa ggagagtctg gcagtcgagg ggagctgggc cccaaaggca 1501 cccagggtcc caacggcacc agcggtgttc agggtgtccc cgggcccccc ggtcctctgg 1561 gcctgcaggg cgtcccgggt gttcctggca tcacggggaa gccgggagtt ccggggaagg 1621 aggccagcga gcagcgcatc agggagctgt gtggggggat gatcagcgaa caaattgcac 1681 agttagccgc gcacctaagg aagcctttGG CACCCGGGTC CATTGGTCGG CCCGGTCCAG 1741 CTGGCCCCCC TGGGCCCCCA GGACCCCCAG GCTCCATTGG TCACCCTGGC GCTCGAGGAC 1801 CCCCCGGATA CCGCGGTCCC ACTGGGGAGC TGGGAGACCC CGGGCCCAGA GGAAACCAGG 1861 GTGACAGAGG AGACAAAGGC GCGGCAGGAG CAGGGCTGGA CGGGCCTGAA GGAGACCAGG 1921 GGCCCCAAGG ACCCCAAGGC GTGCCCGGCA CCAGCAAGGA CGGCCAGGAC GGTGCTCCCG 1981 GCGAGCCTGG GCCTCCCGGA GATCCTGGGC TTCCAGGTGC CATTGGGGCC CAGGGGACAC 2041 CGGGGATCTG CGACACCTCA GTCTGCCAAG GAGCCGTGTT AGGAGGGGTC GGGGAGAAAT 2101 CAGGCTCTCG AAGCTCATAC CCAACTATCT TGTACAAAGT GGTTGATATC GGTAAGCCTA 2161 TCCCTAACCC TCTCCTCGGT CTCGATTCTA CGTAGTAATG AACTAGTCCG TAACTTGAAA 2221 GTATTTCGAT TTCTTGGCTT TATATATCTT GTGGAAAGGA CGACTCGCCG ATCGATCGTC 2281 TTCTGCAACG CGTTAAGTCg acaatcaacc tctggattac aaaatttgtg aaagatt