Construct: ORF ccsbBroadEn_03133
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF004193.1_s300c1, BRDN0000391268
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- VSX1 (30813)
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 | 30813 | VSX1 | visual system homeobox 1 | NM_014588.5 | 100% | 100% | |
| 2 | human | 30813 | VSX1 | visual system homeobox 1 | NM_001256272.1 | 79.6% | 73.6% | (many diffs) |
| 3 | human | 30813 | VSX1 | visual system homeobox 1 | XM_017027837.1 | 75.8% | 72.9% | (many diffs) |
| 4 | human | 30813 | VSX1 | visual system homeobox 1 | NM_001256271.1 | 62.1% | 57.2% | (many diffs) |
| 5 | human | 30813 | VSX1 | visual system homeobox 1 | NM_199425.2 | 61.7% | 60% | (many diffs) |
| 6 | human | 30813 | VSX1 | visual system homeobox 1 | XM_017027838.1 | 58.9% | 57.8% | (many diffs) |
| 7 | human | 30813 | VSX1 | visual system homeobox 1 | NR_045951.1 | 42% | (many diffs) | |
| 8 | human | 30813 | VSX1 | visual system homeobox 1 | NR_045948.1 | 41.4% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 1164
- ORF length:
- 1095
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GACCGGCCGG GACTCGCTTT CCGACGGGCG CACTAGCAGC AGGGCGCTGG 121 TGCCTGGCGG TTCCCCTAGG GGCTCGCGCC CCCGGGGCTT CGCCATCACG GACCTGCTGG 181 GCTTGGAGGC CGAGCTGCCG GCGCCCGCTG GCCCAGGACA GGGATCTGGC TGCGAGGGTC 241 CGGCAGTCGC GCCGTGCCCG GGCCCGGGGC TTGACGGCTC CAGCCTGGCG CGTGGGGCCC 301 TACCGCTGGG ACTCGGCCTC CTCTGTGGCT TCGGCACGCA GCCGCCGGCG GCCGCTCGAG 361 CACCCTGCCT GCTCCTAGCG GACGTGCCGT TCCTGCCGCC CAGGGGCCCC GAGCCCGCTG 421 CCCCGCTGGC TCCCAGCCGT CCGCCGCCTG CGCTCGGCCG CCAGAAGCGC AGCGACAGCG 481 TCTCCACGTC CGATGAGGAC AGCCAGTCTG AAGACAGGAA TGACCTAAAG GCATCCCCCA 541 CCTTGGGCAA GAGGAAGAAG CGGCGGCACA GGACAGTTTT CACTGCTCAC CAGCTGGAAG 601 AGTTGGAGAA GGCATTCAGC GAGGCCCACT ACCCTGATGT GTATGCCCGA GAAATGCTGG 661 CTGTGAAAAC TGAGCTCCCC GAAGACCGGA TACAGGTCTG GTTTCAAAAC CGCAGGGCCA 721 AATGGCGCAA GCGGGAGAAG CGCTGGGGCG GCAGCAGCGT GATGGCCGAG TACGGGCTGT 781 ACGGGGCCAT GGTGCGCCAC TGCATCCCGC TGCCAGACTC CGTGCTCAAC TCCGCCGAGG 841 GCGGCCTGCT GGGCTCCTGC GCGCCCTGGC TCCTGGGGAT GCATAAAAAA TCCATGGGGA 901 TGATAAGGAA GCCAGGAAGT GAAGATAAGT TGGCAGGACT CTGGGGCTCT GACCACTTCA 961 AAGAAGGTTC TAGCCAGAGT GAGTCAGGAT CACAGAGAGG CTCAGATAAA GTGAGCCCTG 1021 AGAATGGCTT GGAAGATGTG GCTATTGACC TCTCCAGCTC TGCCCGGCAG GAGACCAAGA 1081 AAGTGCACCC TGGGGCTGGT GCTCAAGGAG GCTCCAACTC CACGGCACTG GAGGGGCCCC 1141 AGCCAGGGAA GGTGGGAGCC ACATTGCCAA CTTTCTTGTA CAAAGTtggc attataagaa 1201 agcattgctt atcaatttgt tgcaacgaac