Construct: ORF ccsbBroadEn_03331
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF007965.1_s300c1, BRDN0000391028
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- VPS54 (51542)
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 | 51542 | VPS54 | VPS54 subunit of GARP complex | NM_001005739.2 | 100% | 100% | |
| 2 | human | 51542 | VPS54 | VPS54 subunit of GARP complex | NM_016516.3 | 98.7% | 98.7% | 135_170del |
| 3 | human | 51542 | VPS54 | VPS54 subunit of GARP complex | XM_017004316.1 | 88.7% | 88.2% | (many diffs) |
| 4 | human | 51542 | VPS54 | VPS54 subunit of GARP complex | XR_244939.5 | 60.1% | (many diffs) | |
| 5 | human | 51542 | VPS54 | VPS54 subunit of GARP complex | XR_001738770.2 | 59.5% | (many diffs) | |
| 6 | human | 51542 | VPS54 | VPS54 subunit of GARP complex | XR_002959306.1 | 40.6% | (many diffs) | |
| 7 | mouse | 245944 | Vps54 | VPS54 GARP complex subunit | NM_001290628.1 | 91.2% | 92.7% | (many diffs) |
| 8 | mouse | 245944 | Vps54 | VPS54 GARP complex subunit | NM_139061.5 | 90.1% | 91.6% | (many diffs) |
| 9 | mouse | 245944 | Vps54 | VPS54 GARP complex subunit | XM_011243720.1 | 90.1% | 91.6% | (many diffs) |
| 10 | mouse | 245944 | Vps54 | VPS54 GARP complex subunit | XM_006514699.3 | 76% | 77.8% | (many diffs) |
| 11 | mouse | 245944 | Vps54 | VPS54 GARP complex subunit | XR_380966.3 | 51.9% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2961
- ORF length:
- 2895
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGGC TTCAAGCCAC AGTTCTTCAC CAGTGCCTCA AGGAAGCAGC AGTGATGTTT 121 TCTTTAAAAT AGAGGTAGAT CCGTCAAAAC ACATTCGACC TGTGCCATCA CTGCCAGATG 181 TGTGTCCCAA GGAACCCACA GTTACAGATC AACATAGATG GACTGTATAT CATTCCAAAG 241 TAAATCTCCC AGCAGCATTA AACGATCCTA GATTAGCAAA AAGAGAATCT GACTTCTTCA 301 CAAAAACATG GGGATTGGAC TTTGTGGACA CTGAAGTCAT ACCTTCATTC TACCTCCCAC 361 AGATCAGCAA GGAACATTTT ACAGTATATC AACAGGAAAT CTCTCAGAGA GAGAAGATTC 421 ATGAGAGATG CAAGAATATT TGTCCTCCTA AAGATACCTT CGAAAGGACT CTTTTACATA 481 CTCATGATAA ATCCAGGACA GATCTGGAGC AAGTACCTAA GATTTTTATG AAACCAGATT 541 TTGCCTTGGA TGATTCCTTA ACTTTTAATT CAGTTTTACC ATGGTCTCAT TTTAATACTG 601 CTGGTGGAAA AGGAAATCGT GATGCAGCTT CCTCAAAGTT GCTTCAAGAA AAGCTGAGCC 661 ATTATCTGGA TATTGTGGAA GTAAACATTG CTCACCAGAT CTCTCTACGT TCAGAAGCAT 721 TTTTTCATGC AATGACCTCT CAACACGAGT TGCAGGACTA CCTCAGGAAA ACTTCCCAGG 781 CTGTAAAAAT GCTTCGAGAT AAAATTGCAC AGATTGATAA AGTAATGTGT GAAGGATCAC 841 TCCACATTTT AAGACTGGCA CTTACCAGAA ATAATTGTGT TAAAGTATAC AATAAGCTGA 901 AGTTAATGGC CACTGTACAC CAGACTCAGC CTACAGTACA GGTGTTATTA TCTACTTCTG 961 AATTTGTTGG AGCATTGGAC TTAATAGCAA CAACACAAGA GGTTCTACAG CAGGAACTTC 1021 AGGGCATTCA CAGTTTCCGG CATTTGGGAT CACAGCTTTG TGAATTAGAA AAACTGATAG 1081 ATAAAATGAT GATTGCAGAA TTTTCTACTT ATTCTCACAG TGACTTAAAT AGACCACTGG 1141 AAGATGACTG TCAAGTTTTA GAAGAGGAAA GACTAATATC TCTTGTATTT GGACTTTTAA 1201 AACAAAGAAA GCTTAATTTT TTAGAAATCT ATGGTGAAAA AATGGTTATT ACAGCAAAGA 1261 ATATCATTAA ACAGTGTGTG ATTAATAAAG TTTCACAAAC AGAAGAAATA GACACAGATG 1321 TTGTTGTGAA GCTTGCAGAT CAGATGAGAA TGTTGAATTT TCCCCAGTGG TTTGATCTGC 1381 TCAAGGATAT TTTCTCTAAG TTTACAATTT TCCTACAGAG AGTGAAGGCA ACATTAAATA 1441 TCATTCACAG TGTTGTTCTC TCAGTTCTTG ACAAAAACCA AAGGACTAGA GAATTGGAAG 1501 AGATTTCACA ACAGAAGAAT GCTGCAAAAG ATAATTCACT GGACACAGAG GTGGCTTATT 1561 TAATCCATGA AGGCATGTTT ATAAGTGATG CATTCGGTGA GGGTGAGCTA ACACCTATAG 1621 CAGTTGACAC TACCTCTCAA AGAAATGCAT CTCCAAATAG TGAGCCCTGC AGCAGTGATT 1681 CTGTATCCGA GCCAGAATGT ACTACTGATT CTTCATCCAG CAAAGAGCAC ACATCATCAT 1741 CTGCTATTCC AGGAGGTGTG GATATTATGG TCAGTGAAGA TATGAAATTA ACTGACTCAG 1801 AGCTAGGAAA GCTGGCAAAT AATATCCAGG AATTATTATA TAGTGCCTCA GATATATGCC 1861 ATGATCGAGC TGTCAAATTT CTCATGTCAA GAGCAAAGGA TGGTTTTCTT GAGAAGCTAA 1921 ATTCCATGGA ATTCATAACA CTTTCTAGAT TAATGGAAAC ATTCATTTTA GACACCGAAC 1981 AGATCTGTGG AAGAAAAAGC ACGTCATTAC TTGGAGCACT TCAGAGCCAA GCTATTAAGT 2041 TTGTAAATAG GTTTCATGAA GAGAGAAAAA CCAAGCTCAG CCTCCTCTTA GACAATGAGC 2101 GCTGGAAGCA AGCAGATGTT CCTGCAGAAT TTCAGGATCT TGTTGATTCT CTGTCAGATG 2161 GGAAGATTGC TTTACCTGAA AAAAAATCAG GAGCCACAGA AGAAAGGAAA CCAGCTGAAG 2221 TTCTTATTGT CGAGGGACAA CAGTATGCAG TTGTTGGAAC CGTATTGCTG TTAATAAGAA 2281 TTATCCTTGA ATATTGCCAG TGTGTGGATA ACATCCCATC TGTTACTACT GACATGCTTA 2341 CTCGTCTGTC AGATTTATTG AAGTACTTCA ATTCAAGAAG TTGCCAGTTA GTTCTTGGAG 2401 CTGGTGCACT GCAAGTTGTT GGACTAAAAA CGATAACTAC AAAAAATTTG GCTCTTTCTT 2461 CACGATGTTT GCAGTTAATT GTGCACTACA TTCCTGTGAT CCGGGCTCAT TTTGAAGCTC 2521 GACTACCACC TAAGCAATAT AGCATGCTTA GGCATTTTGA TCATATCACT AAGGACTACC 2581 ATGATCACAT AGCTGAAATA TCAGCTAAGC TTGTAGCGAT AATGGATAGC TTATTTGACA 2641 AGCTGTTATC TAAGTATGAA GTGAAGGCTC CTGTTCCTTC TGCCTGTTTC AGGAATATTT 2701 GTAAGCAAAT GACAAAAATG CACGAAGCTA TATTTGATCT CCTTCCAGAA GAACAAACAC 2761 AGATGTTATT TTTAAGAATT AATGCAAGTT ATAAACTCCA CTTGAAAAAG CAGTTATCTC 2821 ACTTAAATGT GATAAATGAT GGAGGACCTC AAAATGGGTT GGTCACAGCA GATGTAGCTT 2881 TTTACACTGG AAATCTTCAA GCCTTAAAAG GCCTTAAAGA TTTGGACCTA AATATGGCCG 2941 AAATTTGGGA GCAGAAGAGG TGCCCAACTT TCTTGTACAA AGTtggcatt ataagaaagc 3001 attgcttatc aatttgttgc aacgaac