Construct: ORF TRCN0000476088
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF005217.1_s317c1
- Derived from:
- ccsbBroadEn_11395
- DNA Barcode:
- GCCCTACCTCTTATGCCTTCTACG
- Epitope Tag:
- V5
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SNCAIP (9627)
Vector Information:
- Vector Backbone:
- pLX_317
- Pol II Cassette 1:
- SV40-PuroR
- Pol II Cassette 2:
- EF1a-TRCN0000476088
- 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 | 9627 | SNCAIP | synuclein alpha interacting... | NM_001308100.2 | 99.8% | 99.7% | (many diffs) |
| 2 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543737.2 | 99.8% | 99.7% | (many diffs) |
| 3 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543738.2 | 99.8% | 99.7% | (many diffs) |
| 4 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543739.1 | 99.8% | 99.7% | (many diffs) |
| 5 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543741.2 | 99.8% | 99.7% | (many diffs) |
| 6 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543743.2 | 99.8% | 99.7% | (many diffs) |
| 7 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010078.1 | 99.8% | 99.7% | (many diffs) |
| 8 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010079.1 | 97.4% | 97% | (many diffs) |
| 9 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010080.1 | 96% | 95.1% | (many diffs) |
| 10 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_005272138.4 | 95.2% | 95% | (many diffs) |
| 11 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_005272139.1 | 95.2% | 95% | (many diffs) |
| 12 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_006714734.2 | 95.2% | 95% | (many diffs) |
| 13 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543745.1 | 95.2% | 95% | (many diffs) |
| 14 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_024446266.1 | 95.2% | 95% | (many diffs) |
| 15 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010081.1 | 94.9% | 94.6% | (many diffs) |
| 16 | human | 9627 | SNCAIP | synuclein alpha interacting... | NM_005460.4 | 90.2% | 90% | (many diffs) |
| 17 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010082.1 | 90.2% | 90% | (many diffs) |
| 18 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_024446267.1 | 90.2% | 90% | (many diffs) |
| 19 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_024446268.1 | 90.2% | 90% | (many diffs) |
| 20 | human | 9627 | SNCAIP | synuclein alpha interacting... | NM_001308105.1 | 84.3% | 84.1% | (many diffs) |
| 21 | human | 9627 | SNCAIP | synuclein alpha interacting... | XR_001742362.1 | 75.3% | (many diffs) | |
| 22 | human | 9627 | SNCAIP | synuclein alpha interacting... | NR_131761.1 | 74.9% | (many diffs) | |
| 23 | human | 9627 | SNCAIP | synuclein alpha interacting... | XR_001742363.1 | 60.1% | (many diffs) | |
| 24 | human | 9627 | SNCAIP | synuclein alpha interacting... | NM_001308108.1 | 59.6% | 57.1% | (many diffs) |
| 25 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543749.2 | 58.9% | 56.1% | (many diffs) |
| 26 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010083.1 | 58.9% | 56.1% | (many diffs) |
| 27 | human | 9627 | SNCAIP | synuclein alpha interacting... | NM_001242935.2 | 58.4% | 56.2% | (many diffs) |
| 28 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_011543750.1 | 57.9% | 56.8% | (many diffs) |
| 29 | human | 9627 | SNCAIP | synuclein alpha interacting... | XR_001742364.1 | 57.5% | (many diffs) | |
| 30 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_024446269.1 | 53.9% | 51.2% | (many diffs) |
| 31 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010084.1 | 53.8% | 51.1% | (many diffs) |
| 32 | human | 9627 | SNCAIP | synuclein alpha interacting... | NM_001308107.2 | 53.4% | 51.3% | (many diffs) |
| 33 | human | 9627 | SNCAIP | synuclein alpha interacting... | NM_001308106.1 | 52.9% | 51.8% | (many diffs) |
| 34 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010085.1 | 52.9% | 51.8% | (many diffs) |
| 35 | human | 9627 | SNCAIP | synuclein alpha interacting... | XM_017010086.1 | 51.7% | 51.2% | (many diffs) |
| 36 | human | 9627 | SNCAIP | synuclein alpha interacting... | XR_001742365.2 | 51.1% | (many diffs) | |
| 37 | human | 9627 | SNCAIP | synuclein alpha interacting... | NM_001308109.2 | 50% | 48% | (many diffs) |
| 38 | human | 9627 | SNCAIP | synuclein alpha interacting... | XR_001742366.1 | 49.4% | (many diffs) | |
| 39 | human | 9627 | SNCAIP | synuclein alpha interacting... | NR_131762.1 | 48.5% | (many diffs) | |
| 40 | mouse | 67847 | Sncaip | synuclein, alpha interactin... | NM_001199151.1 | 80.5% | 81% | (many diffs) |
| 41 | mouse | 67847 | Sncaip | synuclein, alpha interactin... | NM_001199153.1 | 80.5% | 81% | (many diffs) |
| 42 | mouse | 67847 | Sncaip | synuclein, alpha interactin... | XM_006526191.3 | 80.5% | 81% | (many diffs) |
| 43 | mouse | 67847 | Sncaip | synuclein, alpha interactin... | XM_006526192.3 | 80.5% | 81% | (many diffs) |
| 44 | mouse | 67847 | Sncaip | synuclein, alpha interactin... | NM_001199154.1 | 76.6% | 77.8% | (many diffs) |
| 45 | mouse | 67847 | Sncaip | synuclein, alpha interactin... | NM_026408.4 | 76.6% | 77.8% | (many diffs) |
| 46 | mouse | 67847 | Sncaip | synuclein, alpha interactin... | XM_017317971.1 | 75.5% | 75.3% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 3117
- ORF length:
- 3048
- Sequence:
-
1 tcttccattt caggtgtcgt gaggctagca tcgattgatc aacaagtttg tacaaaaaag 61 ttggcaccat ggaagcccct gaataccttg atttggatga aattgacttt agtgatgaca 121 tatctgacaa taggagtcaa gggaacaggc tacaaaagct tggattggag gacacagaca 181 gggaagatgc aatgggcttt ggttcccata gggccaaact gacagtagtt gctgccctgg 241 gagcttgcca ttgtcctgag aatgagtatt cagtcacatc actcaagacg atcccagaac 301 tgtgccgaag atgtgatacg caaaacgaag acagatcagt ttctagctct agctggaatt 361 gtggcatctc aactcttatt acaaacacgc aaaagcccac aggaatcgct gatgtgtaca 421 gtaagttccg cccagtgaag cgggtttcgc cactgaaaca tcagccagag actctggaga 481 acaatgaaag tgatgaccaa aagaaccaga aagtggttga gtaccagaaa gggggtgagt 541 ctgacctggg cccccagcct caggagcttg gccctggaga tggagtgggc ggcccaccag 601 gtaagagctc tgagcccagc acatcgctgg gtgaactgga gcactacgac ctcgacatgg 661 atgagattct ggatgtgcct tatattaaat ccagtcagca gcttgcctct tttaccaagg 721 tgacttcaga aaaaagaatt ttgggcttat gcacaaccat caatggcctt tttggcaaag 781 cctgctctac aggaagttct gagagctcat catccaacat ggcaccattt tgtgttcttt 841 ctcccgtgaa aagccctcac ttgagaaaag catcagctgt catccacgac cagcacaagc 901 tgtccactga agaaaccgag atctcacctc ctctggttaa atgtggctct gcatatgagc 961 ctgaaaacca gagtaaagac ttcctaaaca agacatttag tgatcctcat ggtcgaaaag 1021 ttgagaagac aacaccagac tgccagctca gggccttcca cctacaatcc tcagcagcag 1081 aatccaaacc agaagagcag gtcagtggcc taaaccggac cagctcccaa ggcccagaag 1141 aaaggagtga gtatctgaaa aaagtgaaaa gcatcttgaa cattgttaaa gaaggacaga 1201 tctctctcct gccacaccta gctgcagaca atctagacaa aattcacgac gaaaatggaa 1261 acaatctatt acatattgcg gcgtcacagg gacacgcaga gtgtctacag cacctcactt 1321 ctttgatggg agaagactgc ctcaatgagc gcaacactga gaagttgact ccagcaggcc 1381 tggccattaa gaatggtcag ttggagtgcg tacgctggat ggtgagcgaa acagaagcca 1441 ttgcagaact gagttgttct aaggattttc caagccttat tcattacgca ggttgctatg 1501 gccaggaaaa gattcttctg tggcttcttc agtttatgca agagcagggc atctcgttgg 1561 atgaagtaga ccaggatggc aacagtgccg ttcacgtagc ctcacagcat ggctaccttg 1621 gatgcataca gaccttggtt gaatatggag caaatgtcac catgcagaac cacgctgggg 1681 aaaagccctc ccagagcgcc gagcggcagg ggcacaccct gtgctccagg tacctggtgg 1741 tggtggagac ctgcatgtcg ctggcctctc aagtggtgaa gttaaccaag cagctaaagg 1801 aacaaacagt agaacgtgtc acgctgcaga accaactcca acaatttcta gaagcccaga 1861 aatcagaggg caagtcactc ccttcttcac ccagttcacc atcctcacct gcctccagaa 1921 agtcccagtg gaaatctcca gatgcagatg atgattctgt agccaaaagc aagccaggag 1981 tccaagaggg gattcaggtt cttggaagcc tgtcagcctc cagccgggct agacccaaag 2041 caaaagatgg agattctgat aaaatcttac gccagttatt gggaaaggaa atctcagaaa 2101 atgtctgcac ccaggaaaaa ctgtccttgg aattccagga tgctcaggct tcctctagaa 2161 attctaaaaa gatcccactg gagaagaggg aactgaagtt agccaggctg agacagctga 2221 tgcagaggtc actgagtgag tctgacacag actccaacaa ctctgaggac cccaagacta 2281 ccccagtgag gaagggtgac cgaccaaggc cgcagcccat tgtagaaagc gtagagagta 2341 tggacagcgc agaaagcctg cacctgatga ttaagaaaca caccttggca tcagggggac 2401 gcaggtttcc tttcagcatc aaggcctcca aatccctgga tggccacagc ccatctccca 2461 cctcagagag cagcgaacca gacttagaat cccagtatcc aggctcaggg agtattcctc 2521 caaaccagcc ctctggtgac cctcagcagc ccagccctga cagtactgct gcccagaaag 2581 ttgccacaag tcccaagagt gccctcaagt ctccatcttc caagcgtagg acatctcaga 2641 acttaaaact gagagttacc tttgaggagc ctgtggtgca gatggagcag cctagccttg 2701 aactgaatgg agaaaaagac aaagataagg gcaggactct ccagcggacc tccacaagta 2761 acgaatcggg ggatcaactg aaaaggCCTT TTGGAGCCTT TCGATCTATC ATGGAGACAC 2821 TAAGTGGCAA CCAAAACAAT AATAATAACT ACCAGGCAGC CAACCAGCTG AAAACCTCTA 2881 CATTGCCCTT GACCTCACTT GGGAGGAAGA CAGATGCCAA GGGAAACCCT GCCAGCTCCG 2941 CTAGCAAAGG AAAGAATAAG GCAGAAATGT ACAGCAGCTG CATCAATCTT TCCTCTAACA 3001 TGCTGATTGA AGAGCATCTG TGTAACGACA CACGGCATAA TGACATCAAT AGAAAAATGA 3061 AGAAATCCTA CAGCATAAAG CACATTGCTG AGCCAGAGTC AAAAGAACTC TTCTTGTTGC 3121 CAACTTTCTT GTACAAAGTG GTTGATATCG GTAAGCCTAT CCCTAACCCT CTCCTCGGTC 3181 TCGATTCTAC GTAGTAATGA ACTAGTCCGT AACTTGAAAG TATTTCGATT TCTTGGCTTT 3241 ATATATCTTG TGGAAAGGAC GAGCCCTACC TCTTATGCCT TCTACGACGC GTTAAGTCga 3301 caatcaacct ctggattaca aaatttgtga aagatt