Construct: ORF ccsbBroad304_11723
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF016492.1_s304c1, BRDN0000410429
- Derived from:
- ccsbBroadEn_11723
- DNA Barcode:
- None
- Epitope Tag:
- V5
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- VPS39 (23339)
Vector Information:
- Vector Backbone:
- pLX_304
- Pol II Cassette 1:
- PGK-BlastR
- Pol II Cassette 2:
- CMV-ccsbBroad304_11723
- Selection Marker:
- BlastR
- 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 | 23339 | VPS39 | VPS39 subunit of HOPS complex | XM_017022038.1 | 95.4% | 95.4% | 1_102del |
| 2 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | NM_015289.4 | 81.9% | 81.9% | 1_474del |
| 3 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | NM_001301138.2 | 80.9% | 80.9% | 1_507del |
| 4 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | XM_017022037.1 | 79.7% | 78.3% | (many diffs) |
| 5 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | XM_011521404.2 | 79.5% | 77.3% | 1_474del;2550_2619del;2688_2689insTGACACT |
| 6 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | XM_017022036.1 | 78.7% | 77.4% | (many diffs) |
| 7 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | XM_011521403.2 | 78.5% | 76.3% | 1_507del;2583_2652del;2721_2722insTGACACT |
| 8 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | XM_017022039.1 | 71.9% | 71.5% | (many diffs) |
| 9 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | XR_001751181.1 | 42.8% | 1_642del;2063_2237del;2969_5024del | |
| 10 | human | 23339 | VPS39 | VPS39 subunit of HOPS complex | XR_001751180.1 | 42.7% | 1_650del;2071_2245del;2977_5032del | |
| 11 | mouse | 269338 | Vps39 | VPS39 HOPS complex subunit | XM_006499598.3 | 76.6% | 81.5% | (many diffs) |
| 12 | mouse | 269338 | Vps39 | VPS39 HOPS complex subunit | NM_178851.3 | 74.6% | 79.4% | (many diffs) |
| 13 | mouse | 269338 | Vps39 | VPS39 HOPS complex subunit | NM_147153.3 | 73.7% | 78.4% | (many diffs) |
| 14 | mouse | 269338 | Vps39 | VPS39 HOPS complex subunit | XM_006499599.1 | 63.8% | 67.9% | (many diffs) |
| 15 | mouse | 269338 | Vps39 | VPS39 HOPS complex subunit | XR_001782888.1 | 45.6% | (many diffs) | |
| 16 | mouse | 269338 | Vps39 | VPS39 HOPS complex subunit | NR_027618.1 | 44.2% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2217
- ORF length:
- 2151
- Sequence:
-
1 ggtctatata agcagagctc tctggctaac tgtcgggatc aacaagtttg tacaaaaaag 61 ttggcatggc gtggtgtgaa aattctatct gtgtgggttt caagagagac tactacctaa 121 taagggtgga tggaaagggg tccatcaaag agctctttcc aacaggaaaa cagctggagc 181 ccttagttgc acctctggca gatggaaaag tggctgtggg ccaggatgat ctcaccgtgg 241 tactcaatga ggaagggatc tgcacacaga aatgtgccct gaactggacg gacataccag 301 tggccatgga gcaccagcct ccctacatca ttgcagtgtt gcctcgatat gttgagatcc 361 gaacatttga accgaggctt ctggtccaaa gcattgaatt gcaaaggccc cgtttcatta 421 cctcaggagg atcaaacatt atctatgtgg ccagcaatca ttttgtttgg agactcatcc 481 ctgtccccat ggcaacccaa atccaacaac ttctccagga caagcagttt gaattggctc 541 tgcagctcgc agaaatgaaa gatgattctg acagtgaaaa gcagcaacaa attcatcaca 601 tcaagaactt gtatgccttc aacctcttct gccagaagcg ttttgatgag tccatgcagg 661 tctttgctaa acttggcaca gatcccaccc atgtgatggg cctgtaccct gacctgctgc 721 ccacagacta cagaaagcag ttgcagtatc ccaacccatt gcctgtgctc tccggggctg 781 aattggagaa ggctcactta gctctgattg actacctgac acagaaacga agtcaattgg 841 taaagaagct gaatgactct gatcaccagt caagcacctc accgctcatg gaaggcactc 901 ccaccatcaa atccaagaag aagctgctac aaatcatcga caccaccctg ctcaagtgct 961 atctccatac aaatgtggcc ctggtggccc ccttgctacg cctggagaac aatcactgcc 1021 acatcgagga gagcgagcac gtgctaaaga aggctcacaa gtacagtgag cttatcatcc 1081 tgtatgagaa gaaggggctc cacgagaaag ctctgcaggt gctcgtggac cagtccaaga 1141 aagccaactc ccctctgaaa ggccacgaga ggacagtgca gtatctgcag catctgggca 1201 cagaaaacct gcatttgatt ttctcctact cagtgtgggt gctgagagac ttcccagaag 1261 atggcctgaa gatatttact gaagatctcc cggaagtgga gtctctgcca cgtgatcgag 1321 tcctcggctt cttaatagag aattttaagg gtctggctat tccttatctg gaacacatca 1381 tccatgtttg ggaggagaca ggctctcggt tccacaactg cctgatccag ctatactgtg 1441 agaaggtgca aggtctgatg aaggagtatc tcctgtcctt ccctgcaggc aaaaccccag 1501 tcccagctgg agaggaagag ggtgagctgg gagaataccg gcaaaagctc ctcatgttct 1561 tggagatttc cagctactat gatccaggcc ggctcatctg tgattttccc tttgatggcc 1621 tcttagaaga acgagctctc ctgttggggc gcatggggaa acatgaacaa gctcttttca 1681 tttatgtcca catcttgaag gatacaagga tggctgagga gtactgccac aaacactatg 1741 accgaaacaa agatggcaac aaagatgtgt atctgtccct gcttcggatg tacctgtcgc 1801 cccccagcat tcactgcctg gggccaatca agctggaact actggagcca aaagccaacc 1861 tccaggccgc tctgcaggtc ctcgagctac accacagcaa actggacacc accaaggccc 1921 tcaaccttct gccagcaaac actcagatca atgacatacg catcttcctg gaaaaggtct 1981 tggaagaaaa tgcacaaaag aaacggttca atcaagtgct caagaacctt ctccatgcag 2041 aattcctgag ggtccaggaa gagcggattt tacaccagca ggtgaagtgc atcatcacag 2101 aggagaaggt gtgcatggtg tgtaagaaga agattgggaa cagtgcattt gcaagatacc 2161 ccaatggagt ggtcgtccat tacttctgtt ccaaagaggt aaacccagct gacacttgcc 2221 caactttctt gtacaaagtg gttggtaagc ctatccctaa ccctctcctc ggtctcgatt 2281 ctacgtagta atgagctagc gctaaccggt ggcgcgttaa gtcgacaatc aacctctgga 2341 tta