Construct: ORF ccsbBroadEn_07003
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF016110.1_s300c1, BRDN0000388131
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SSX4 (6759)
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 | 548313 | SSX4B | SSX family member 4B | NM_001034832.3 | 99.8% | 100% | 453T>C |
| 2 | human | 6759 | SSX4 | SSX family member 4 | NM_005636.4 | 99.8% | 100% | 453T>C |
| 3 | human | 548313 | SSX4B | SSX family member 4B | XM_017029613.1 | 99.8% | 100% | 453T>C |
| 4 | human | 6759 | SSX4 | SSX family member 4 | XM_017029759.1 | 99.8% | 100% | 453T>C |
| 5 | human | 10214 | SSX3 | SSX family member 3 | NM_021014.4 | 91.1% | 80.8% | (many diffs) |
| 6 | human | 727837 | SSX2B | SSX family member 2B | NM_001164417.3 | 91.1% | 79.7% | (many diffs) |
| 7 | human | 6757 | SSX2 | SSX family member 2 | NM_175698.2 | 91.1% | 79.7% | (many diffs) |
| 8 | human | 280658 | SSX7 | SSX family member 7 | NM_173358.2 | 90.6% | 82.4% | (many diffs) |
| 9 | human | 6758 | SSX5 | SSX family member 5 | NM_175723.1 | 89.7% | 78.1% | (many diffs) |
| 10 | human | 6758 | SSX5 | SSX family member 5 | XM_011543949.2 | 89.7% | 78.1% | (many diffs) |
| 11 | human | 6758 | SSX5 | SSX family member 5 | XM_017029758.2 | 89.7% | 78.1% | (many diffs) |
| 12 | human | 6756 | SSX1 | SSX family member 1 | NM_001278691.2 | 89.3% | 79.2% | (many diffs) |
| 13 | human | 6756 | SSX1 | SSX family member 1 | NM_005635.4 | 89.3% | 79.2% | (many diffs) |
| 14 | human | 6757 | SSX2 | SSX family member 2 | NM_001278697.1 | 80% | 70% | (many diffs) |
| 15 | human | 727837 | SSX2B | SSX family member 2B | NM_001278702.2 | 80% | 70% | (many diffs) |
| 16 | human | 10214 | SSX3 | SSX family member 3 | XM_011543885.2 | 79.2% | 61.8% | (many diffs) |
| 17 | human | 280658 | SSX7 | SSX family member 7 | XM_017029430.1 | 76.3% | 69.5% | (many diffs) |
| 18 | human | 6758 | SSX5 | SSX family member 5 | NM_021015.4 | 73.6% | 64.1% | (many diffs) |
| 19 | human | 548313 | SSX4B | SSX family member 4B | NM_001040612.2 | 71.9% | 57% | 329_330ins136;429_459del |
| 20 | human | 6759 | SSX4 | SSX family member 4 | NM_175729.1 | 71.9% | 57% | 329_330ins136;429_459del |
| 21 | human | 727837 | SSX2B | SSX family member 2B | NM_001278701.2 | 66.7% | 56.8% | (many diffs) |
| 22 | human | 6757 | SSX2 | SSX family member 2 | NM_003147.5 | 66.7% | 56.8% | (many diffs) |
| 23 | human | 280658 | SSX7 | SSX family member 7 | XM_017029431.1 | 62.5% | 46.6% | (many diffs) |
| 24 | human | 280657 | SSX6P | SSX family member 6, pseudo... | NR_028366.1 | 39% | (many diffs) | |
| 25 | human | 280659 | SSX8P | SSX family member 8, pseudo... | NR_027250.2 | 35% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 630
- ORF length:
- 564
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGAA CGGAGACGAC GCCTTTGCAA GGAGACCCAG GGATGATGCT CAAATATCAG 121 AGAAGTTACG AAAGGCCTTC GATGATATTG CCAAATACTT CTCTAAGAAA GAGTGGGAAA 181 AGATGAAATC CTCGGAGAAA ATCGTCTATG TGTATATGAA GCTAAACTAT GAGGTCATGA 241 CTAAACTAGG TTTCAAGGTC ACCCTCCCAC CTTTCATGCG TAGTAAACGG GCTGCAGACT 301 TCCACGGGAA TGATTTTGGT AACGATCGAA ACCACAGGAA TCAGGTTGAA CGTCCTCAGA 361 TGACTTTCGG CAGCCTCCAG AGAATCTTCC CGAAGATCAT GCCCAAGAAG CCAGCAGAGG 421 AAGAAAATGG TTTGAAGGAA GTGCCAGAGG CATCTGGCCC ACAAAATGAT GGGAAACAGC 481 TGTGCCCCCC GGGAAATCCA AGTACCTTGG AGAAGATCAA CAAGACATCT GGACCCAAAA 541 GGGGGAAACA TGCCTGGACC CACAGACTGC GTGAGAGAAA GCAGCTGGTG GTTTATGAAG 601 AGATCAGCGA CCCTGAGGAA GATGACGAGT ACCCAACTTT CTTGTACAAA GTtggcatta 661 taagaaagca ttgcttatca atttgttgca acgaac