Construct: ORF ccsbBroadEn_02989
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF004120.1_s300c1, BRDN0000397086
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- VPS41 (27072)
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 | 27072 | VPS41 | VPS41 subunit of HOPS complex | NM_014396.4 | 100% | 100% | |
| 2 | human | 27072 | VPS41 | VPS41 subunit of HOPS complex | NM_080631.3 | 97% | 97% | 246_247ins75 |
| 3 | human | 27072 | VPS41 | VPS41 subunit of HOPS complex | XM_017011988.1 | 54.4% | 54% | (many diffs) |
| 4 | human | 27072 | VPS41 | VPS41 subunit of HOPS complex | XR_926930.3 | 43% | 1_26del;2430_2523del;2683_5956del | |
| 5 | mouse | 218035 | Vps41 | VPS41 HOPS complex subunit | NM_172120.4 | 90.8% | 97.1% | (many diffs) |
| 6 | mouse | 218035 | Vps41 | VPS41 HOPS complex subunit | XM_006516641.2 | 73.7% | 79.3% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2628
- ORF length:
- 2562
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGGC GGAAGCAGAG GAGCAGGAAA CTGGGTCCCT TGAAGAATCT ACAGATGAGT 121 CTGAGGAAGA AGAGAGCGAA GAGGAACCCA AGCTGAAGTA TGAAAGGCTT TCCAATGGGG 181 TAACTGAAAT ACTTCAGAAG GATGCAGCTA GCTGCATGAC AGTCCATGAC AAGTTTTTGG 241 CATTGGGCAC ACATTATGGC AAGGTTTATT TACTTGATGT CCAGGGGAAC ATCACTCAGA 301 AGTTTGATGT AAGTCCTGTG AAGATAAATC AGATTAGCTT GGATGAAAGT GGAGAGCACA 361 TGGGTGTGTG TTCAGAGGAT GGCAAGGTGC AGGTATTTGG ACTGTATTCT GGAGAAGAAT 421 TTCACGAGAC TTTTGACTGT CCCATTAAAA TTATTGCTGT GCACCCACAT TTCGTGAGAT 481 CCAGTTGCAA GCAGTTTGTG ACCGGAGGGA AGAAGCTGCT ACTGTTTGAA CGGTCTTGGA 541 TGAACAGATG GAAGTCTGCT GTTCTGCATG AAGGGGAAGG GAACATAAGG AGTGTGAAGT 601 GGAGAGGCCA TCTGATTGCT TGGGCCAATA ATATGGGTGT GAAGATTTTT GACATCATCT 661 CAAAGCAAAG AATCACCAAT GTGCCCCGGG ATGATATAAG TCTTCGCCCA GACATGTATC 721 CCTGCAGCCT CTGCTGGAAG GACAATGTGA CACTGATTAT TGGCTGGGGG ACTTCTGTCA 781 AGGTGTGCTC AGTGAAGGAA CGGCATGCCA GTGAAATGAG GGATTTGCCA AGTCGATATG 841 TTGAAATAGT GTCTCAGTTT GAAACTGAAT TCTACATCAG TGGACTTGCA CCTCTCTGTG 901 ATCAGCTTGT TGTACTTTCG TATGTAAAGG AGATTTCAGA AAAAACGGAA AGAGAATACT 961 GTGCCAGGCC TAGACTGGAC ATCATCCAGC CACTTTCTGA GACTTGTGAA GAGATCTCTT 1021 CTGATGCTTT GACAGTCAGA GGCTTTCAGG AGAATGAATG TAGAGATTAT CATTTAGAAT 1081 ACTCTGAAGG GGAATCACTT TTTTACATCG TGAGTCCGAG AGATGTTGTA GTGGCCAAGG 1141 AACGAGACCA AGATGATCAC ATTGACTGGC TCCTTGAAAA GAAGAAATAT GAAGAAGCAT 1201 TGATGGCAGC TGAAATTAGC CAAAAAAATA TTAAAAGACA TAAGATTCTG GATATTGGCT 1261 TGGCATATAT AAATCACCTG GTGGAGAGAG GAGACTATGA CATAGCAGCA CGCAAATGCC 1321 AGAAAATTCT TGGGAAAAAT GCAGCACTCT GGGAATATGA AGTTTATAAA TTTAAAGAAA 1381 TTGGACAGCT TAAGGCTATT AGTCCTTATT TGCCAAGAGG TGATCCAGTT CTGAAACCAC 1441 TCATCTATGA AATGATCTTA CATGAATTTT TGGAGAGTGA TTATGAGGGT TTTGCCACAT 1501 TGATCCGAGA ATGGCCTGGA GATCTGTATA ATAATTCAGT CATAGTTCAA GCAGTTCGGG 1561 ATCATTTGAA GAAAGATAGT CAGAACAAGA CTTTACTTAA AACCCTGGCA GAATTGTACA 1621 CCTATGACAA GAACTATGGC AATGCTCTGG AAATATACTT AACATTAAGA CATAAAGACG 1681 TTTTTCAGTT GATCCACAAG CATAATCTTT TCAGTTCTAT CAAGGATAAA ATTGTTTTAT 1741 TAATGGATTT TGATTCAGAG AAAGCTGTTG ACATGCTTTT GGACAATGAA GATAAAATTT 1801 CAATTAAAAA GGTAGTGGAA GAATTGGAAG ACAGACCAGA GCTACAGCAT GTGTATTTGC 1861 ATAAGCTTTT CAAGAGAGAC CACCATAAGG GGCAGCGTTA CCATGAAAAA CAGATCAGTC 1921 TTTATGCTGA ATATGATCGA CCAAACTTAC TTCCCTTTCT CCGAGACAGT ACCCATTGCC 1981 CACTTGAAAA GGCTCTTGAG ATCTGTCAAC AGAGAAACTT TGTAGAAGAG ACAGTTTATC 2041 TTCTGAGCCG AATGGGTAAT AGCCGAAGTG CCCTGAAGAT GATTATGGAG GAATTACATG 2101 ATGTTGATAA AGCAATCGAA TTTGCCAAGG AGCAAGATGA TGGAGAGCTG TGGGAAGATT 2161 TGATTTTATA TTCCATTGAC AAACCACCAT TTATTACTGG CTTGTTAAAC AACATTGGCA 2221 CACATGTTGA CCCAATTCTA CTGATTCACC GTATTAAGGA AGGAATGGAG ATCCCCAATT 2281 TGAGAGATTC CTTGGTTAAA ATTCTGCAAG ACTACAATTT GCAAATTCTG CTTCGTGAAG 2341 GCTGCAAGAA GATTCTCGTA GCTGACTCTT TGTCCTTACT GAAGAAAATG CACCGAACTC 2401 AAATGAAAGG TGTTCTTGTT GATGAGGAGA ACATCTGTGA GTCGTGCCTT TCCCCTATTC 2461 TTCCATCAGA TGCAGCTAAG CCCTTCAGCG TGGTGGTCTT CCATTGCCGG CACATGTTCC 2521 ACAAGGAGTG CCTGCCCATG CCCAGCATGA ACTCTGCTGC ACAGTTCTGC AACATCTGCA 2581 GTGCTAAGAA CCGTGGACCA GGAAGTGCAA TTTTGGAGAT GAAAAAATAC CCAACTTTCT 2641 TGTACAAAGT tggcattata agaaagcatt gcttatcaat ttgttgcaac gaac