Construct: ORF ccsbBroadEn_06924
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF002061.1_s300c1, BRDN0000392383
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SDC1 (6382)
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 | 6382 | SDC1 | syndecan 1 | NM_001006946.1 | 99.8% | 99.6% | 776G>T |
| 2 | human | 6382 | SDC1 | syndecan 1 | NM_002997.5 | 99.7% | 99.3% | 407T>A;776G>T |
| 3 | human | 6382 | SDC1 | syndecan 1 | XM_005262621.3 | 95.6% | 92.9% | (many diffs) |
| 4 | human | 6382 | SDC1 | syndecan 1 | XM_005262622.2 | 93.6% | 92.2% | (many diffs) |
| 5 | human | 6382 | SDC1 | syndecan 1 | XM_005262620.4 | 90.7% | 87.7% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 996
- ORF length:
- 930
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGAG GCGCGCGGCG CTCTGGCTCT GGCTGTGCGC GCTGGCGCTG AGCCTGCAGC 121 CGGCCCTGCC GCAAATTGTG GCTACTAATT TGCCCCCTGA AGATCAAGAT GGCTCTGGGG 181 ATGACTCTGA CAACTTCTCC GGCTCAGGTG CAGGTGCTTT GCAAGATATC ACCTTGTCAC 241 AGCAGACCCC CTCCACTTGG AAGGACACGC AGCTCCTGAC GGCTATTCCC ACGTCTCCAG 301 AACCCACCGG CCTGGAGGCT ACAGCTGCCT CCACCTCCAC CCTGCCGGCT GGAGAGGGGC 361 CCAAGGAGGG AGAGGCTGTA GTCCTGCCAG AAGTGGAGCC TGGCCTCACC GCCCGGGAGC 421 AGGAGGCCAC CCCCCGACCC AGGGAGACCA CACAGCTCCC GACCACTCAT CAGGCCTCAA 481 CGACCACAGC CACCACGGCC CAGGAGCCCG CCACCTCCCA CCCCCACAGG GACATGCAGC 541 CTGGCCACCA TGAGACCTCA ACCCCTGCAG GACCCAGCCA AGCTGACCTT CACACTCCCC 601 ACACAGAGGA TGGAGGTCCT TCTGCCACCG AGAGGGCTGC TGAGGATGGA GCCTCCAGTC 661 AGCTCCCAGC AGCAGAGGGC TCTGGGGAGC AGGACTTCAC CTTTGAAACC TCGGGGGAGA 721 ATACGGCTGT AGTGGCCGTG GAGCCTGACC GCCGGAACCA GTCCCCAGTG GATCAGGGGG 781 CCACGGGGGC CTCACAGGGC CTCCTGGACA GGAAAGAGGT GCTGGGAGGG GTCATTGCCG 841 TAGGCCTCGT GGGGCTCATC TTTGCTGTGT GCCTGGTGGG TTTCATGCTG TACCGCATGA 901 AGAAGAAGGA CGAAGGCAGC TACTCCTTGG AGGAGCCGAA ACAAGCCAAC GGCGGGGCCT 961 ACCAGAAGCC CACCAAACAG GAGGAATTCT ATGCCTGCCC AACTTTCTTG TACAAAGTtg 1021 gcattataag aaagcattgc ttatcaattt gttgcaacga ac