Construct: ORF ccsbBroadEn_10006
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF015416.1_s300c1, BRDN0000398466
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- VSX2 (338917)
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 | 338917 | VSX2 | visual system homeobox 2 | NM_182894.3 | 99.9% | 100% | 471C>T |
| 2 | mouse | 12677 | Vsx2 | visual system homeobox 2 | NM_007701.3 | 91.3% | 96.6% | (many diffs) |
| 3 | mouse | 12677 | Vsx2 | visual system homeobox 2 | NM_001301427.1 | 86.7% | 91.8% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 1152
- ORF length:
- 1083
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GACGGGGAAA GCAGGGGAAG CGCTGAGCAA GCCCAAATCC GAGACAGTGG 121 CCAAGAGTAC CTCGGGGGGC GCCCCGGCCA GGTGCACTGG GTTCGGCATC CAGGAGATCC 181 TGGGCTTGAA CAAGGAGCCC CCGAGCTCCC ACCCGCGGGC AGCGCTCGAC GGCCTGGCCC 241 CCGGGCACTT GCTGGCGGCG CGCTCAGTGC TCAGCCCCGC GGGGGTGGGC GGCATGGGGC 301 TTCTGGGGCC CGGGGGGCTC CCTGGCTTCT ACACGCAGCC CACCTTCCTG GAAGTGCTGT 361 CCGACCCGCA GAGCGTCCAC TTGCAGCCAT TGGGCAGAGC ATCGGGGCCG CTGGACACCA 421 GCCAGACGGC CAGCTCGGAT TCTGAAGATG TTTCCTCCAG CGATCGAAAA ATGTCCAAAT 481 CTGCTTTAAA CCAGACCAAG AAACGGAAGA AGCGGCGACA CAGGACAATC TTTACCTCTT 541 ACCAGCTAGA GGAGCTGGAG AAGGCATTCA ACGAAGCCCA CTACCCAGAC GTCTATGCCC 601 GGGAGATGCT GGCCATGAAA ACGGAGCTGC CGGAAGACAG GATACAGGTC TGGTTCCAGA 661 ACCGTCGAGC CAAGTGGAGG AAGCGGGAGA AGTGCTGGGG CCGGAGCAGT GTCATGGCGG 721 AGTATGGGCT CTACGGGGCC ATGGTGCGGC ACTCCATCCC CCTGCCCGAG TCCATCCTCA 781 AGTCAGCCAA GGATGGCATC ATGGACTCCT GTGCCCCGTG GCTACTGGGG ATGCACAAAA 841 AGTCGCTGGA GGCAGCAGCC GAGTCGGGGA GGAAGCCCGA GGGGGAACGC CAGGCCCTGC 901 CCAAGCTCGA CAAGATGGAG CAGGACGAGC GGGGCCCCGA CGCTCAGGCG GCCATCTCCC 961 AGGAGGAACT GAGGGAGAAC AGCATTGCGG TGCTCCGGGC CAAAGCTCAG GAGCACAGCA 1021 CCAAAGTGCT GGGGACTGTG TCTGGGCCGG ACAGCCTGGC CCGGAGTACC GAGAAGCCAG 1081 AGGAGGAGGA GGCCATGGAT GAAGACAGGC CGGCGGAGAG GCTCAGTCCA CCGCAGCTGG 1141 AGGACATGGC TTTGCCAACT TTCTTGTACA AAGTtggcat tataagaaag cattgcttat 1201 caatttgttg caacgaac