Construct: ORF ccsbBroad304_02234
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF007366.1_s304c1, BRDN0000462264
- Derived from:
- ccsbBroadEn_02234
- DNA Barcode:
- None
- Epitope Tag:
- V5
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PCDHA9 (9752)
Vector Information:
- Vector Backbone:
- pLX_304
- Pol II Cassette 1:
- PGK-BlastR
- Pol II Cassette 2:
- CMV-ccsbBroad304_02234
- Selection Marker:
- BlastR
- 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 | 9752 | PCDHA9 | protocadherin alpha 9 | NM_031857.1 | 100% | 100% | |
| 2 | human | 56141 | PCDHA7 | protocadherin alpha 7 | NM_018910.3 | 90% | 89.5% | (many diffs) |
| 3 | human | 9752 | PCDHA9 | protocadherin alpha 9 | NM_014005.4 | 86.5% | 83.1% | (many diffs) |
| 4 | human | 56144 | PCDHA4 | protocadherin alpha 4 | NM_018907.4 | 85.6% | 84.4% | (many diffs) |
| 5 | human | 56145 | PCDHA3 | protocadherin alpha 3 | NM_018906.3 | 82.2% | 82.6% | (many diffs) |
| 6 | human | 56136 | PCDHA13 | protocadherin alpha 13 | NM_018904.3 | 81.7% | 80.9% | (many diffs) |
| 7 | human | 56140 | PCDHA8 | protocadherin alpha 8 | NM_018911.3 | 81.7% | 80.3% | (many diffs) |
| 8 | human | 56139 | PCDHA10 | protocadherin alpha 10 | NM_018901.4 | 81.2% | 81.3% | (many diffs) |
| 9 | human | 56138 | PCDHA11 | protocadherin alpha 11 | NM_018902.4 | 80.9% | 79.4% | (many diffs) |
| 10 | human | 56142 | PCDHA6 | protocadherin alpha 6 | NM_018909.4 | 80.7% | 80.2% | (many diffs) |
| 11 | human | 56137 | PCDHA12 | protocadherin alpha 12 | NM_018903.4 | 80.2% | 79.3% | (many diffs) |
| 12 | human | 56141 | PCDHA7 | protocadherin alpha 7 | NM_031852.1 | 74.3% | 73.3% | (many diffs) |
| 13 | human | 56144 | PCDHA4 | protocadherin alpha 4 | NM_031500.3 | 70.6% | 68.4% | (many diffs) |
| 14 | human | 56139 | PCDHA10 | protocadherin alpha 10 | NM_031860.3 | 59.5% | 59.4% | (many diffs) |
| 15 | human | 56142 | PCDHA6 | protocadherin alpha 6 | NM_031849.3 | 58.6% | 57.5% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 2919
- ORF length:
- 2850
- Sequence:
-
1 ggtctatata agcagagctc tctggctaac tgtcgggatc aacaagtttg tacaaaaaag 61 ttggcaccat gttatactca agtcgaggag atccagaggg tcagcctcta ctgctctcgc 121 ttctgatcct cgcaatgtgg gtggtgggga gcggccagct ccactactcc gtcccggagg 181 aagccgaaca cggcaccttc gtgggccgca tcgcgcagga cctggggctg gagctggcgg 241 agctggtgcc gcgcctgttc cagttggatt ccaaaggccg cggggacctt ctggaggtaa 301 atctgcagaa tggcattttg tttgtgaatt ctcggatcga ccgcgaggag ctgtgcgggc 361 ggagcgcgga gtgcagcatc cacctggagg tgatcgtaga caggccgctg caggttttcc 421 atgtggacgt ggaggtgaag gacattaacg acaaccctcc agtgttccca gcgacacaaa 481 agaatctgtt catcgcggaa tccaggccgc ttgactctcg gtttccacta gagggcgcgt 541 ccgatgcaga tatcggggag aacgccctgc tcacttacag actgagcccc aatgagtatt 601 tcttcctgga cgtgccaacc agcaaccagc aggtaaaacc tcttggactt gtattacgga 661 aacttttaga cagagaagaa actccggagc ttcatttatt gctcacggcc accgatggag 721 gcaaacccga gctgactggc accgttcaat tactcatcac ggtactggac aacaatgaca 781 atgccccagt gttcgacaga accctgtata cggtgaaatt accagaaaac gtttctatcg 841 gaacgctggt gattcacccc aatgcctcag atttagacga aggcttgaat ggggatatta 901 tttactcctt ctccagtgat gtttctccag atataaaatc caagttccac atggacccct 961 taagtggggc aatcacagtg ataggacata tggattttga agaaagtaga gcacacaaga 1021 tcccagtcga ggctgtcgat aaaggcttcc cacccctggc tggtcattgt acacttcttg 1081 tggaagttgt ggatgtaaat gacaatgctc cacagttgac tatcaaaacg ctctcggttc 1141 ctgtaaaaga ggacgcacaa ctggggacag ttattgccct gattagtgtg atcgacctag 1201 acgcagatgc caacgggcag gttacctgct ccctgacgcc ccacgtcccc ttcaagctgg 1261 tgtccaccta caagaattac tactcgttgg tgctggacag agctctggac cgcgagagtg 1321 tgtccgccta cgagctggtg gttaccgcgc gggacggggg ctcgccttca ctgtgggcca 1381 cggccagggt gtctgtggag gtggccgacg tgaacgacaa cgcaccagcg ttcgcgcagt 1441 ccgagtacac ggtgttcgtg aaggagaaca acccgccggg ctgccacatc ttcacggtgt 1501 ctgcgcggga cgctgacgcg caggagaacg ccctggtgtc ctactcgctg gtggagcggc 1561 ggttgggcga gcgctcgctg tcgagctacg tgtcagtgca cgcggagagc ggcaaggtgt 1621 acgcgctgca gccgttggac cacgaggagc tggagctgct acagttccag gtgagcgcgc 1681 gcgacgcggg cgtgccgcct ctgggcagca acgtgacgct gcaggtgttc gtgctggacg 1741 agaacgacaa tgcgccggcg ctgctgacac ctcggatgag gggcactgac ggcgcagtga 1801 gcgagatggt gctgcggtcg gtgggcgccg gcgtagtggt ggggaaggtg cgcgcagtgg 1861 acgccgactc gggctacaac gcgtggcttt catacgagct gcagccagaa acggccagcg 1921 cgagcatccc gttccgcgtg gggctgtaca cgggcgagat cagcacaacg cgtgccctgg 1981 acgaaacgga cgcaccgcgc cagcgcctac tggtgctggt gaaagaccac ggggagccag 2041 cgctgacggc cacggccact gtgctggtgt cgctggtgga gagcggccag gcgccaaagt 2101 catcgtcgcg ggcgtcagtg ggtgccacgg gccccgaggt gacgctggtg gatgtcaacg 2161 tgtacctgat catcgccatc tgcgcggtgt ctagcctgtt ggttctcacg ctgctgctgt 2221 acactgtgct gcggtgctcg gcgatgccca ccgagggcga gtgcgcgcct ggcaagccga 2281 cgctggtgtg ttctagcgcg gtggggagtt ggtcgtactc gcagcagagg aggcagaggg 2341 tgtgctctgg cgagggtaag cagaagaccg acctcatggc cttcagcccg ggcctttctc 2401 cttgtgctgg atctacagag cgaacgggag aaccctctgc ttcctcagat tcaactggga 2461 agccacgaca gcccaaccct gactggcgtt actctgcctc cctgagagca ggcatgcaca 2521 gctctgtgca cctagaggag gctggcattc tacgggctgg tccaggaggg cctgatcagc 2581 agtggccaac agtatccagt gcaacaccag aaccagaggc aggagaagtg tcccctccag 2641 tcggtgcggg tgtcaacagc aacagctgga cctttaaata cggaccaggc aaccccaaac 2701 aatccggtcc cggtgagttg cccgacaaat tcattatccc aggatctcct gcaatcatct 2761 ccatccggca ggagcctact aacagccaaa ttgacaaaag tgacttcata accttcggca 2821 aaaaggagga gaccaagaaa aagaagaaaa agaagaaggg taacaagacc caggagaaaa 2881 aagagaaagg gaacagcacg actgacaaca gtgaccagtt gccaactttc ttgtacaaag 2941 tggttggtaa gcctatccct aaccctctcc tcggtctcga ttctacgtag taatgagcta 3001 gcgctaaccg gtggcgcgtt aagtcgacaa tcaacctctg gatta