Construct: ORF ccsbBroadEn_06396
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF000506.1_s300c1, BRDN0000392759
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- HOXD3 (3232)
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 | 3232 | HOXD3 | homeobox D3 | NM_006898.5 | 99.9% | 100% | 1051T>C |
| 2 | human | 3232 | HOXD3 | homeobox D3 | XM_005246509.4 | 99.9% | 100% | 1051T>C |
| 3 | human | 3232 | HOXD3 | homeobox D3 | XM_005246511.4 | 99.9% | 100% | 1051T>C |
| 4 | human | 3232 | HOXD3 | homeobox D3 | XM_011511065.3 | 99.9% | 100% | 1051T>C |
| 5 | human | 3232 | HOXD3 | homeobox D3 | XM_011511066.3 | 99.9% | 100% | 1051T>C |
| 6 | mouse | 15434 | Hoxd3 | homeobox D3 | NM_010468.2 | 90.8% | 95.6% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 1362
- ORF length:
- 1296
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGTT ATTTGAGCAG GGTCAGCAGG CCCTGGAGCT TCCTGAGTGC ACAATGCAGA 121 AGGCTGCTTA CTATGAAAAC CCAGGACTGT TTGGAGGCTA TGGCTACAGC AAAACTACGG 181 ACACTTACGG CTACAGCACC CCCCACCAGC CCTACCCACC CCCTGCTGCT GCCAGCTCCC 241 TGGACACTGA CTATCCAGGT TCTGCCTGCT CCATCCAGAG CTCTGCCCCT CTGAGAGCCC 301 CAGCCCACAA AGGAGCTGAA CTCAATGGCA GCTGCATGCG GCCGGGCACT GGGAACAGCC 361 AGGGTGGGGG TGGTGGCAGC CAGCCTCCTG GTCTGAACTC AGAGCAGCAG CCACCACAAC 421 CCCCTCCTCC ACCACCGACC CTGCCCCCAT CTTCACCCAC CAATCCTGGA GGTGGAGTGC 481 CTGCCAAGAA GCCCAAAGGT GGGCCCAATG CTTCTAGCTC CTCAGCCACC ATCAGCAAGC 541 AGATCTTCCC CTGGATGAAA GAGTCTCGAC AGAACTCCAA GCAGAAGAAC AGCTGTGCCA 601 CTGCAGGAGA GAGCTGCGAG GACAAGAGCC CGCCAGGCCC AGCATCCAAG CGGGTACGCA 661 CGGCATACAC GAGCGCGCAG CTGGTGGAAT TGGAAAAGGA ATTCCACTTC AACCGCTACT 721 TGTGCCGGCC GCGCCGCGTG GAGATGGCCA ACCTGCTGAA TCTCACGGAA CGCCAGATCA 781 AGATCTGGTT CCAGAACCGG CGCATGAAGT ACAAGAAGGA CCAGAAGGCC AAGGGCATCC 841 TGCACTCGCC GGCTAGCCAG TCCCCTGAGC GCAGCCCACC GCTCGGCGGC GCCGCTGGCC 901 ACGTGGCCTA CTCCGGCCAG CTGCCGCCAG TGCCCGGCCT GGCCTACGAC GCGCCCTCGC 961 CGCCTGCTTT CGCCAAATCA CAGCCCAATA TGTACGGCCT GGCCGCCTAC ACGGCGCCAC 1021 TCAGCAGCTG CCTGCCACAA CAGAAGCGCT ACGCAGCGCC GGAGTTCGAG CCCCATCCCA 1081 TGGCGAGCAA CGGCGGCGGC TTCGCCAGCG CCAACCTGCA GGGCAGCCCG GTGTACGTGG 1141 GCGGCAACTT CGTCGAGTCC ATGGCGCCCG CGTCCGGGCC TGTCTTCAAC CTGGGCCACC 1201 TCTCGCACCC GTCGTCGGCC AGCGTGGACT ACAGTTGCGC CGCGCAGATT CCAGGCAACC 1261 ACCACCATGG ACCTTGCGAC CCTCATCCCA CCTACACAGA TCTCTCGGCC CACCACTCGT 1321 CTCAGGGACG ACTGCCGGAG GCTCCCAAAC TGACGCATCT GTACCCAACT TTCTTGTACA 1381 AAGTtggcat tataagaaag cattgcttat caatttgttg caacgaac