Construct: ORF ccsbBroadEn_01036
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF003122.1_s300c1, BRDN0000390450
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- MSH5 (4439)
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 | 4439 | MSH5 | mutS homolog 5 | NM_025259.5 | 100% | 100% | |
| 2 | human | 4439 | MSH5 | mutS homolog 5 | NM_172165.3 | 94.4% | 94.4% | 537_538ins51;2231_2320del |
| 3 | human | 4439 | MSH5 | mutS homolog 5 | NM_002441.4 | 94.3% | 94.3% | 537_538ins51;1959_1960insCAG;2228_2317del |
| 4 | human | 4439 | MSH5 | mutS homolog 5 | NM_172166.4 | 94.3% | 94.3% | 537_538ins51;1959_1960insCAG;2228_2317del |
| 5 | human | 100532732 | MSH5-SAPCD1 | MSH5-SAPCD1 readthrough (NM... | NR_037846.1 | 60.4% | (many diffs) | |
| 6 | mouse | 17687 | Msh5 | mutS homolog 5 | NM_001146215.2 | 81.8% | 83.7% | (many diffs) |
| 7 | mouse | 17687 | Msh5 | mutS homolog 5 | NM_013600.3 | 81.8% | 83.7% | (many diffs) |
| 8 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_011246314.1 | 81.7% | 83.6% | (many diffs) |
| 9 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_006523771.3 | 80.6% | 81.7% | (many diffs) |
| 10 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_006523770.1 | 80.1% | 81% | (many diffs) |
| 11 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_006523778.1 | 76.8% | 78.5% | (many diffs) |
| 12 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317278.1 | 73.8% | 75.8% | (many diffs) |
| 13 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317279.1 | 73.7% | 75.7% | (many diffs) |
| 14 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317280.1 | 72.5% | 74.4% | (many diffs) |
| 15 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317281.1 | 71.7% | 73.7% | (many diffs) |
| 16 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317282.1 | 71.5% | 73.4% | (many diffs) |
| 17 | mouse | 17687 | Msh5 | mutS homolog 5 | NR_130640.1 | 70.8% | (many diffs) | |
| 18 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317283.1 | 70% | 71.1% | (many diffs) |
| 19 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317284.1 | 68.8% | 70% | (many diffs) |
| 20 | mouse | 17687 | Msh5 | mutS homolog 5 | NR_130641.1 | 68.2% | (many diffs) | |
| 21 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317285.1 | 68% | 69.4% | (many diffs) |
| 22 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_006523780.3 | 66.5% | 69.2% | (many diffs) |
| 23 | mouse | 17687 | Msh5 | mutS homolog 5 | XR_001782049.1 | 63.4% | (many diffs) | |
| 24 | mouse | 17687 | Msh5 | mutS homolog 5 | XR_001782050.1 | 62.7% | (many diffs) | |
| 25 | mouse | 17687 | Msh5 | mutS homolog 5 | XR_001782053.1 | 61.5% | (many diffs) | |
| 26 | mouse | 17687 | Msh5 | mutS homolog 5 | XR_001782051.1 | 58.1% | (many diffs) | |
| 27 | mouse | 17687 | Msh5 | mutS homolog 5 | XR_001782054.1 | 56.8% | (many diffs) | |
| 28 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317286.1 | 56.5% | 57.8% | (many diffs) |
| 29 | mouse | 17687 | Msh5 | mutS homolog 5 | XR_001782052.1 | 52.9% | (many diffs) | |
| 30 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317288.1 | 38.1% | 36.6% | (many diffs) |
| 31 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317289.1 | 38.1% | 36.6% | (many diffs) |
| 32 | mouse | 17687 | Msh5 | mutS homolog 5 | XM_017317290.1 | 38.1% | 36.6% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2532
- ORF length:
- 2466
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGGC CTCCTTAGGA GCGAACCCAA GGAGGACACC GCAGGGACCG AGACCTGGGG 121 CGGCCTCCTC CGGCTTCCCC AGCCCGGCCC CAGTGCCGGG CCCCAGGGAG GCCGAGGAGG 181 AGGAAGTCGA GGAGGAGGAG GAGCTGGCCG AGATCCATCT GTGTGTGCTG TGGAATTCAG 241 GATACTTGGG CATTGCCTAC TATGATACTA GTGACTCCAC TATCCACTTC ATGCCAGATG 301 CCCCAGACCA CGAGAGCCTC AAGCTTCTCC AGAGAGTTCT GGATGAGATC AATCCCCAGT 361 CTGTTGTTAC GAGTGCCAAA CAGGATGAGA ATATGACTCG ATTTCTGGGA AAGCTTGCCT 421 CCCAGGAGCA CAGAGAGCCT AAAAGACCTG AAATCATATT TTTGCCAAGT GTGGATTTTG 481 GTCTGGAGAT AAGCAAACAA CGCCTCCTTT CTGGAAACTA CTCCTTCATC CCAGACGCCA 541 TGACTGCCAC TGAGAAAATC CTCTTCCTCT CTTCCATTAT TCCCTTTGAC TGCCTCCTCA 601 CACCCCCAGG AGATTTAAGA TTTACCCCGA TTCCACTGCT GATCCCCTCC CAGGTTCGAG 661 CACTTGGAGG GCTGCTGAAG TTCCTGGGTC GAAGAAGAAT CGGGGTTGAA CTGGAAGACT 721 ATAATGTCAG CGTCCCCATC CTGGGCTTTA AGAAATTTAT GTTGACTCAT CTGGTGAACA 781 TAGATCAAGA CACTTACAGT GTTCTACAGA TTTTTAAGAG TGAGTCTCAC CCCTCAGTGT 841 ACAAAGTGGC CAGTGGACTG AAGGAGGGGC TCAGCCTCTT TGGAATCCTC AACAGATGCC 901 ACTGTAAGTG GGGAGAGAAG CTGCTCAGGC TATGGTTCAC ACGTCCGACT CATGACCTGG 961 GGGAGCTCAG TTCTCGTCTG GACGTCATTC AGTTTTTTCT GCTGCCCCAG AATCTGGACA 1021 TGGCTCAGAT GCTGCATCGG CTCCTGGGTC ACATCAAGAA CGTGCCTCTG ATTCTGAAAC 1081 GCATGAAGTT GTCCCACACC AAGGTCAGCG ACTGGCAGGT TCTCTACAAG ACTGTGTACA 1141 GTGCCCTGGG CCTGAGGGAT GCCTGCCGCT CCCTGCCGCA GTCCATCCAG CTCTTTCGGG 1201 ACATTGCCCA AGAGTTCTCT GATGACCTGC ACCATATCGC CAGCCTCATT GGGAAAGTAG 1261 TGGACTTTGA GGGCAGCCTT GCTGAAAATC GCTTCACAGT CCTCCCCAAC ATAGATCCTG 1321 AAATTGATGA GAAAAAGCGA AGACTGATGG GACTTCCCAG TTTCCTTACT GAGGTTGCCC 1381 GCAAGGAGCT GGAGAATCTG GACTCCCGTA TTCCTTCATG CAGTGTCATC TACATCCCTC 1441 TGATTGGCTT CCTTCTTTCT ATTCCCCGCC TGCCTTCCAT GGTAGAGGCC AGTGACTTTG 1501 AGATTAATGG ACTGGACTTC ATGTTTCTCT CAGAGGAGAA GCTGCACTAT CGTAGTGCCC 1561 GAACCAAGGA GCTGGATGCA TTGCTGGGGG ACCTGCACTG CGAGATCCGG GACCAGGAGA 1621 CGCTGCTGAT GTACCAGCTA CAGTGCCAGG TGCTGGCACG AGCAGCTGTC TTAACCCGAG 1681 TATTGGACCT TGCCTCCCGC CTGGACGTCC TGCTGGCTCT TGCCAGTGCT GCCCGGGACT 1741 ATGGCTACTC AAGGCCGCGT TACTCCCCAC AAGTCCTTGG GGTACGAATC CAGAATGGCA 1801 GACATCCTCT GATGGAACTC TGTGCCCGAA CCTTTGTGCC CAACTCCACA GAATGTGGTG 1861 GGGACAAAGG GAGGGTCAAA GTCATCACTG GACCCAACTC ATCAGGGAAG AGCATATACC 1921 TCAAACAGGT AGGCTTGATC ACATTCATGG CCCTGGTAGG CAGCTTTGTG CCAGCAGAGG 1981 AGGCCGAAAT TGGGGCAGTA GACGCCATCT TCACACGAAT TCATAGCTGC GAATCCATCT 2041 CCCTTGGCCT CTCCACCTTC ATGATCGACC TCAACCAGCA GGTGGCGAAA GCAGTGAACA 2101 ATGCCACTGC ACAGTCGCTG GTCCTTATTG ATGAATTTGG AAAGGGAACC AACACGGTGG 2161 ATGGGCTCGC GCTTCTGGCC GCTGTGCTCC GACACTGGCT GGCACGTGGA CCCACATGCC 2221 CCCACATCTT TGTGGCCACC AACTTTCTGA GCCTTGTTCA GCTACAACTG CTGCCACAAG 2281 GGCCCCTGGT GCAGTATTTG ACCATGGAGA CCTGTGAGGA TGGCAACGAT CTTGTCTTCT 2341 TCTATCAGGT CTCAGACTTG ATCCGCAGTG GAAAACCCAT CAAGCCTGTC AAGGATTTGC 2401 TAAAGAAGAA CCAAATGGAA AATTGCCAGA CATTAGTGGA TAAGTTTATG AAACTGGATT 2461 TGGAAGATCC TAACCTGGAC TTGAACGTTT TCATGAGCCA GGAAGTGCTG CCTGCTGCCA 2521 CCAGCATCCT CTGCCCAACT TTCTTGTACA AAGTtggcat tataagaaag cattgcttat 2581 caatttgttg caacgaac