Construct: ORF TRCN0000478347
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF002014.1_s317c1
- Derived from:
- ccsbBroadEn_03708
- DNA Barcode:
- GTTAGTGCAGTCTACCGATACGAT
- Epitope Tag:
- V5
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PCDHA4 (56144)
Vector Information:
- Vector Backbone:
- pLX_317
- Pol II Cassette 1:
- SV40-PuroR
- Pol II Cassette 2:
- EF1a-TRCN0000478347
- 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 | 56144 | PCDHA4 | protocadherin alpha 4 | NM_031500.3 | 100% | 100% | |
| 2 | human | 56144 | PCDHA4 | protocadherin alpha 4 | NM_018907.4 | 84.1% | 83.9% | (many diffs) |
| 3 | human | 9752 | PCDHA9 | protocadherin alpha 9 | NM_014005.4 | 79.1% | 77.3% | (many diffs) |
| 4 | human | 9752 | PCDHA9 | protocadherin alpha 9 | NM_031857.1 | 70.6% | 68.4% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 2463
- ORF length:
- 2394
- Sequence:
-
1 tcttccattt caggtgtcgt gaggctagca tcgattgatc aacaagtttg tacaaaaaag 61 ttggcaccat ggagttttcc tggggaagcg gccaggaatc ccggcgtctg ctgctcttac 121 ttcttctcct cgcagcctgg gaggcaggga acggtcagct ccactactcg gtctccgagg 181 aggccaaaca cggcaccttc gtgggccgca tcgcgcagga cctgggactg gagctggcgg 241 agctggtgcc gcgcctgttc cgggtggcgt ccaagggccg cggaggcctt ctggaggtaa 301 atctgcagaa tggcattttg tttgtgaatt ctcggatcga ccgggaggag ctgtgccggc 361 ggagcgcgga gtgcagcatc cacctggagg tgatcgtaga caggccgctg caggttttcc 421 atgtggacgt ggaggtgagg gacattaacg ataacccgcc ggtgttccca gcaacacaaa 481 agaacctgtc catcgcggaa tccaggccgc ttgactctcg gtttccacta gagggcgcct 541 cggatgcaga tatcggggag aacgccctgc tcacttacag actgagccca aatgaatact 601 tttctctgga aaaaccacct gatgacgagc tggtaaaagg tcttgggctt atattacgga 661 aatctttaga cagagaagaa gctccggaga tttttttagt gctcacagcc actgatggag 721 gcaaacccga gttgactggc accgttcagt tactcatcac agtactggat gccaatgaca 781 atgccccagc ttttgacaga accatttata aggtgagatt actagaaaat gttcctaatg 841 gaacattggt aattaaactt aacgcctcag atttagacga aggattgaat ggggacattg 901 tttattcatt ctcaaatgat atttcgccaa atgtgaaatc caagtttcac atagatccaa 961 ttactggaca aattattgta aagggatata ttgactttga agaaagcaaa tcctatgaaa 1021 ttattgtaga gggcattgat aagggacagc tcccactttc tggccattgt agagttattg 1081 tggaagtaga agacaacaac gataatgtcc cagatttgga attcaagtct ttatcacttc 1141 caattagaga ggacgctcca ctgggtacag tcatcgccct gatcagcgtg tccgacaaag 1201 acatgggtgt caatgggctg gtcacctgct ccttgacgtc ccacgtcccc ttcaagctgg 1261 tgtccacctt caagaattac tactcgttgg tgctggacag tgccctggac cgcgagagcg 1321 tgtcagccta tgagctggtg gtgaccgcgc gagacggggg ctcgccttcg ctgtgggcca 1381 cggccagtgt ttctgtggag gtggctgatg tgaacgacaa cgctccggcg ttcgcgcagc 1441 ccgagtacac agtgttcgtg aaggagaaca acccgccggg ctgccacatc ttcactgtgt 1501 ctgcgtggga cgcggacgcg caggagaacg cgctggtgtc ctactcgctg gtagagcggc 1561 gggtagggga gcgcgcgctg tcgagctacg tttcggtgca tgcggagagc ggcaaggtgt 1621 acgcgctgca gccgctggac cacgaggagc tagagctgct gcagtttcag gtgaccgctc 1681 gcgatgccgg cgtgccacct ctgggcagca acgtgacgct gcaggtgttc gtgctggacg 1741 aaaacgacaa cgcgccagca ctgctagcgc ctcgggcggg tggcactggt ggcgcagtga 1801 gcgagctggt gccatggtcg gtgggtgtgg gccacgtggt ggcaaaggtg cgcgcggtgg 1861 atgctgactc gggctacaac gcgtggcttt cgtacgagct gcagccgggg actggtggcg 1921 cgcgcatccc gttccgcgtg gggctgtaca ctggcgagat cagcacaacg cgtgccctgg 1981 acgaaacgga cgctccgcgc caccgcctac tggtactggt gaaggaccac ggcgagcccg 2041 cgctgacggc cacggccact gtgctggtgt cacttgtgga gagtggacag gcgccaaagg 2101 cctcctcacg ggcgttggtg ggcgctgtgg gtcccgatgc tgcgctggtg gatgtcaacg 2161 tatacctgat cattgccatc TGCGCGGTGT CCAGCCTTTT GGTGCTCACG CTGCTGCTGT 2221 ACACCGCGCT GCGGTGCTCT GCGCTGCCCA CCGAGGGCGC GTGCGCTCCG GGCAAGCCCA 2281 CGCTGGTGTG CTCCAGTGCG GTGGGGAGCT GGTCATACTC GCAGCAGAGG AGGCCGAGGG 2341 TGTGCTCTGG TGAGGGCCCA CCCAAGACCG ACCTCATGGC CTTCAGCCCC AGTTTACCTG 2401 ACTCTAGGGA CAGAGAAGAT CAGCTGCAGA CAACTGAGGA ATCCTTTGCA AAGGTTAGTG 2461 TATTGCCAAC TTTCTTGTAC AAAGTGGTTG ATATCGGTAA GCCTATCCCT AACCCTCTCC 2521 TCGGTCTCGA TTCTACGTAG TAATGAACTA GTCCGTAACT TGAAAGTATT TCGATTTCTT 2581 GGCTTTATAT ATCTTGTGGA AAGGACGAGT TAGTGCAGTC TACCGATACG ATACGCGTTA 2641 AGTCgacaat caacctctgg attacaaaat ttgtgaaaga tt