Construct: ORF ccsbBroadEn_02357
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF016692.1_s300c1, BRDN0000396798
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SSX3 (10214)
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 | 10214 | SSX3 | SSX family member 3 | XM_011543885.2 | 100% | 100% | |
| 2 | human | 10214 | SSX3 | SSX family member 3 | NM_021014.4 | 86.2% | 78.8% | (many diffs) |
| 3 | human | 727837 | SSX2B | SSX family member 2B | NM_001164417.3 | 83.1% | 70.3% | (many diffs) |
| 4 | human | 6757 | SSX2 | SSX family member 2 | NM_175698.2 | 83.1% | 70.3% | (many diffs) |
| 5 | human | 6758 | SSX5 | SSX family member 5 | NM_175723.1 | 81.2% | 65.8% | (many diffs) |
| 6 | human | 6758 | SSX5 | SSX family member 5 | XM_011543949.2 | 81.2% | 65.8% | (many diffs) |
| 7 | human | 6758 | SSX5 | SSX family member 5 | XM_017029758.2 | 81.2% | 65.8% | (many diffs) |
| 8 | human | 280658 | SSX7 | SSX family member 7 | NM_173358.2 | 80.8% | 65.3% | (many diffs) |
| 9 | human | 548313 | SSX4B | SSX family member 4B | NM_001034832.3 | 79.4% | 61.8% | (many diffs) |
| 10 | human | 6759 | SSX4 | SSX family member 4 | NM_005636.4 | 79.4% | 61.8% | (many diffs) |
| 11 | human | 548313 | SSX4B | SSX family member 4B | XM_017029613.1 | 79.4% | 61.8% | (many diffs) |
| 12 | human | 6759 | SSX4 | SSX family member 4 | XM_017029759.1 | 79.4% | 61.8% | (many diffs) |
| 13 | human | 6756 | SSX1 | SSX family member 1 | NM_001278691.2 | 77.7% | 58.2% | (many diffs) |
| 14 | human | 6756 | SSX1 | SSX family member 1 | NM_005635.4 | 77.7% | 58.2% | (many diffs) |
| 15 | human | 6757 | SSX2 | SSX family member 2 | NM_001278697.1 | 73.9% | 63.2% | (many diffs) |
| 16 | human | 727837 | SSX2B | SSX family member 2B | NM_001278702.2 | 73.9% | 63.2% | (many diffs) |
| 17 | human | 727837 | SSX2B | SSX family member 2B | NM_001278701.2 | 70.7% | 60.7% | (many diffs) |
| 18 | human | 6757 | SSX2 | SSX family member 2 | NM_003147.5 | 70.7% | 60.7% | (many diffs) |
| 19 | human | 280658 | SSX7 | SSX family member 7 | XM_017029430.1 | 68.1% | 56.4% | (many diffs) |
| 20 | human | 6758 | SSX5 | SSX family member 5 | NM_021015.4 | 66.8% | 54.5% | (many diffs) |
| 21 | human | 280658 | SSX7 | SSX family member 7 | XM_017029431.1 | 66.3% | 56% | (many diffs) |
| 22 | human | 280657 | SSX6P | SSX family member 6, pseudo... | NR_028366.1 | 34.8% | (many diffs) | |
| 23 | human | 280659 | SSX8P | SSX family member 8, pseudo... | NR_027250.2 | 30.8% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 576
- ORF length:
- 510
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGAA CGGAGATGAC ACCTTTGCAA GGAGACCCAC GGTTGGTGCT CAAATACCAG 121 AGAAGATACA AAAGGCCTTC GATGATATTG CCAAATACTT CTCTAAGGAA GAGTGGGAAA 181 AGATGAAAGT CTCGGAGAAA ATCGTCTATG TGTATATGAA GAGAAAGTAT GAGGCCATGA 241 CTAAACTAGG TTTCAAGGCC ATCCTCCCAT CTTTCATGCG TAATAAACGG GTCACAGACT 301 TCCAGGGGAA TGATTTTGAT AATGACCCTA ACCGTGGGAA TCAGGTTCAA CGTCCTCAGA 361 TGACTTTCGG CAGGCTCCAG GGAATCTTCC CGAAGATCAT GCCCAAGAAG CCAGCAGAGG 421 AAGGAAATGT TTCGAAGGAA GTGCCAGAAG CATCTGGCCC ACAAAACGAT GGGAAACAGC 481 TGTGCCCCCC GGGAAAACCA ACTACCTCTG AGAAGATTAA CATGATATCT GGTGTCCTTC 541 AGAGATACTG CAGGTTCGGT TCCAGACCAC TGCAATACCC AACTTTCTTG TACAAAGTtg 601 gcattataag aaagcattgc ttatcaattt gttgcaacga ac