Construct: ORF ccsbBroadEn_11039
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF017977.1_s300c1, BRDN0000394858
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PMS1 (5378)
Vector Information:
- Vector Backbone:
- pDONR223
- Pol II Cassette 1:
- n/a
- Pol II Cassette 2:
- n/a
- Selection Marker:
- n/a
- Visible Reporter:
- n/a
- Epitope Tag:
- n/a
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 | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001128144.2 | 86.8% | 86.8% | 2008_2310del |
| 2 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_017004348.1 | 86.8% | 86.8% | 2008_2310del |
| 3 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001321044.2 | 81.8% | 81.8% | 580_581ins117;1891_2193del |
| 4 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_017004350.1 | 78.9% | 78.9% | 131_132ins183;1825_2127del |
| 5 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_000534.4 | 71.7% | 71.6% | 1857_2342del;2494_2796del |
| 6 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001321045.2 | 71.7% | 71.6% | 1857_2342del;2494_2796del |
| 7 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001321047.2 | 71.7% | 71.6% | 1857_2342del;2494_2796del |
| 8 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001321048.2 | 71.7% | 71.6% | 1857_2342del;2494_2796del |
| 9 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_024452964.1 | 71.7% | 71.6% | 1857_2342del;2494_2796del |
| 10 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_024452965.1 | 71.7% | 71.6% | 1857_2342del;2494_2796del |
| 11 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001128143.2 | 67.5% | 67.4% | 580_581ins117;1740_2225del;2377_2679del |
| 12 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_017004344.1 | 67.5% | 67.4% | 580_581ins117;1740_2225del;2377_2679del |
| 13 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_024452966.1 | 67.5% | 67.4% | 580_581ins117;1740_2225del;2377_2679del |
| 14 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_024452967.1 | 67.5% | 67.4% | 580_581ins117;1740_2225del;2377_2679del |
| 15 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001321046.2 | 65.2% | 65.1% | 131_132ins183;1674_2159del;2311_2613del |
| 16 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_017004345.1 | 65.2% | 65.1% | 131_132ins183;1674_2159del;2311_2613del |
| 17 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_017004346.2 | 65.2% | 65.1% | 131_132ins183;1674_2159del;2311_2613del |
| 18 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XR_922951.2 | 64.1% | (many diffs) | |
| 19 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_024452969.1 | 64% | 64% | 0_1ins528;1480_1782del |
| 20 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NR_110332.2 | 63% | (many diffs) | |
| 21 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XR_001738779.1 | 62.2% | (many diffs) | |
| 22 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XR_002959307.1 | 62.1% | (many diffs) | |
| 23 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_017004347.1 | 61% | 60.9% | (many diffs) |
| 24 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001289408.1 | 52.8% | 52.7% | 0_1ins528;1329_1814del;1966_2268del |
| 25 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001289409.1 | 52.8% | 52.7% | 0_1ins528;1329_1814del;1966_2268del |
| 26 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_011511356.3 | 52.8% | 52.7% | 0_1ins528;1329_1814del;1966_2268del |
| 27 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_024452968.1 | 52.8% | 52.7% | 0_1ins528;1329_1814del;1966_2268del |
| 28 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_006712596.1 | 51.6% | 50.9% | (many diffs) |
| 29 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | XM_017004349.2 | 48.7% | 48.6% | (many diffs) |
| 30 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001321049.2 | 24.4% | 21.9% | (many diffs) |
| 31 | human | 5378 | PMS1 | PMS1 homolog 1, mismatch re... | NM_001321051.1 | 23.2% | 21.5% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 2076
- ORF length:
- 2007
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GAAACAATTG CCTGCGGCAA CAGTTCGACT CCTTTCAAGT TCTCAGATCA 121 TCACTTCGGT GGTCAGTGTT GTAAAAGAGC TTATTGAAAA CTCCTTGGAT GCTGGTGCCA 181 CAAGCGTAGA TGTTAAACTG GAGAACTATG GATTTGATAA AATTGAGGTG CGAGATAACG 241 GGGAGGGTAT CAAGGCTGTT GATGCACCTG TAATGGCAAT GAAGTACTAC ACCTCAAAAA 301 TAAATAGTCA TGAAGATCTT GAAAATTTGA CAACTTACGG TTTTCGTGGA GAAGCCTTGG 361 GGTCAATTTG TTGTATAGCT GAGGTTTTAA TTACAACAAG AACGGCTGCT GATAATTTTA 421 GCACCCAGTA TGTTTTAGAT GGCAGTGGCC ACATACTTTC TCAGAAACCT TCACATCTTG 481 GTCAAGGTAC AACTGTAACT GCTTTAAGAT TATTTAAGAA TCTACCTGTA AGAAAGCAGT 541 TTTACTCAAC TGCAAAAAAA TGTAAAGATG AAATAAAAAA GATCCAAGAT CTCCTCATGA 601 GCTTTGGTAT CCTTAAACCT GACTTAAGGA TTGTCTTTGT ACATAACAAG GCAGTTATTT 661 GGCAGAAAAG CAGAGTATCA GATCACAAGA TGGCTCTCAT GTCAGTTCTG GGGACTGCTG 721 TTATGAACAA TATGGAATCC TTTCAGTACC ACTCTGAAGA ATCTCAGATT TATCTCAGTG 781 GATTTCTTCC AAAGTGTGAT GCAGACCACT CTTTCACTAG TCTTTCAACA CCAGAAAGAA 841 GTTTCATCTT CATAAACAGT CGACCAGTAC ATCAAAAAGA TATCTTAAAG TTAATCCGAC 901 ATCATTACAA TCTGAAATGC CTAAAGGAAT CTACTCGTTT GTATCCTGTT TTCTTTCTGA 961 AAATCGATGT TCCTACAGCT GATGTTGATG TAAATTTAAC ACCAGATAAA AGCCAAGTAT 1021 TATTACAAAA TAAGGAATCT GTTTTAATTG CTCTTGAAAA TCTGATGACG ACTTGTTATG 1081 GACCATTACC TAGTACAAAT TCTTATGAAA ATAATAAAAC AGATGTTTCC GCAGCTGACA 1141 TCGTTCTTAG TAAAACAGCA GAAACAGATG TGCTTTTTAA TAAAGTGGAA TCATCTGGAA 1201 AGAATTATTC AAATGTTGAT ACTTCAGTCA TTCCATTCCA AAATGATATG CATAATGATG 1261 AATCTGGAAA AAACACTGAT GATTGTTTAA ATCACCAGAT AAGTATTGGT GACTTTGGTT 1321 ATGGTCATTG TAGTAGTGAA ATTTCTAACA TTGATAAAAA CACTAAGAAT GCATTTCAGG 1381 ACATTTCAAT GAGTAATGTA TCATGGGAGA ACTCTCAGAC GGAATATAGT AAAACTTGTT 1441 TTATAAGTTC CGTTAAGCAC ACCCAGTCAG AAAATGGCAA TAAAGACCAT ATAGATGAGA 1501 GTGGGGAAAA TGAGGAAGAA GCAGGTCTTG AAAACTCTTC GGAAATTTCT GCAGATGAGT 1561 GGAGCAGGGG AAATATACTT AAAAATTCAG TGGGAGAGAA TATTGAACCT GTGAAAATTT 1621 TAGTGCCTGA AAAAAGTTTA CCATGTAAAG TAAGTAATAA TAATTATCCA ATCCCTGAAC 1681 AAATGAATCT TAATGAAGAT TCATGTAACA AAAAATCAAA TGTAATAGAT AATAAATCTG 1741 GAAAAGTTAC AGCTTATGAT TTACTTAGCA ATCGAGTAAT CAAGAAACCC ATGTCAGCAA 1801 GTGCTCTTTT TGTTCAAGAT CATCGTCCTC AGTTTCTCAT AGAAAATCCT AAGACTAGTT 1861 TAGAGGATGC AACACTACAA ATTGAAGAAC TGTGGAAGAC ATTGAGTGAA GAGGAAAAAC 1921 TGAATCTTTT TAATGGATCT CATTATTTAG ACGTTTTATA TAAAATGACA GCAGATGACC 1981 AAAGATACAG TGGATCAACT TACCTGTCTG ATCCTCGTCT TACAGCGAAT GGTTTCAAGA 2041 TAAAATTGAT ACCAGGAGTT TCAATTACTG AAAATTTGCC AACTTTCTTG TACAAAGTtg 2101 gcattataag aaagcattgc ttatcaattt gttgcaacga ac