Construct: ORF ccsbBroadEn_07001
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF006660.1_s300c1, BRDN0000385569
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SSX2 (6757)
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 | 727837 | SSX2B | SSX family member 2B | NM_001164417.3 | 99.6% | 99.4% | 129G>A;506G>C |
| 2 | human | 6757 | SSX2 | SSX family member 2 | NM_175698.2 | 99.6% | 99.4% | 129G>A;506G>C |
| 3 | human | 10214 | SSX3 | SSX family member 3 | NM_021014.4 | 95% | 90.4% | (many diffs) |
| 4 | human | 6758 | SSX5 | SSX family member 5 | NM_175723.1 | 92.7% | 83.5% | (many diffs) |
| 5 | human | 6758 | SSX5 | SSX family member 5 | XM_011543949.2 | 92.7% | 83.5% | (many diffs) |
| 6 | human | 6758 | SSX5 | SSX family member 5 | XM_017029758.2 | 92.7% | 83.5% | (many diffs) |
| 7 | human | 280658 | SSX7 | SSX family member 7 | NM_173358.2 | 91.8% | 85.1% | (many diffs) |
| 8 | human | 548313 | SSX4B | SSX family member 4B | NM_001034832.3 | 90.9% | 79.2% | (many diffs) |
| 9 | human | 6759 | SSX4 | SSX family member 4 | NM_005636.4 | 90.9% | 79.2% | (many diffs) |
| 10 | human | 548313 | SSX4B | SSX family member 4B | XM_017029613.1 | 90.9% | 79.2% | (many diffs) |
| 11 | human | 6759 | SSX4 | SSX family member 4 | XM_017029759.1 | 90.9% | 79.2% | (many diffs) |
| 12 | human | 6756 | SSX1 | SSX family member 1 | NM_001278691.2 | 88.8% | 77.6% | (many diffs) |
| 13 | human | 6756 | SSX1 | SSX family member 1 | NM_005635.4 | 88.8% | 77.6% | (many diffs) |
| 14 | human | 6757 | SSX2 | SSX family member 2 | NM_001278697.1 | 87.5% | 87.3% | 129G>A;465_542del;584G>C |
| 15 | human | 727837 | SSX2B | SSX family member 2B | NM_001278702.2 | 87.5% | 87.3% | 129G>A;465_542del;584G>C |
| 16 | human | 10214 | SSX3 | SSX family member 3 | XM_011543885.2 | 82.9% | 70.3% | (many diffs) |
| 17 | human | 280658 | SSX7 | SSX family member 7 | XM_017029430.1 | 77.8% | 71.7% | (many diffs) |
| 18 | human | 6758 | SSX5 | SSX family member 5 | NM_021015.4 | 76.1% | 68.5% | (many diffs) |
| 19 | human | 727837 | SSX2B | SSX family member 2B | NM_001278701.2 | 73.3% | 72% | (many diffs) |
| 20 | human | 6757 | SSX2 | SSX family member 2 | NM_003147.5 | 73.3% | 72% | (many diffs) |
| 21 | human | 548313 | SSX4B | SSX family member 4B | NM_001040612.2 | 65.5% | 45.8% | (many diffs) |
| 22 | human | 6759 | SSX4 | SSX family member 4 | NM_175729.1 | 65.5% | 45.8% | (many diffs) |
| 23 | human | 280658 | SSX7 | SSX family member 7 | XM_017029431.1 | 63.2% | 51.3% | (many diffs) |
| 24 | human | 280660 | SSX9P | SSX family member 9, pseudo... | NR_073393.1 | 58.3% | (many diffs) | |
| 25 | human | 280657 | SSX6P | SSX family member 6, pseudo... | NR_028366.1 | 39.7% | (many diffs) | |
| 26 | 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 GGAGACCCAC GGTTGGTGCT CAAATACCAG 121 AGAAGATCCA AAAGGCCTTC GATGATATTG CCAAATACTT CTCTAAGGAA GAGTGGGAAA 181 AGATGAAAGC CTCAGAGAAA ATCTTCTATG TGTATATGAA GAGAAAGTAT GAGGCTATGA 241 CTAAACTAGG TTTCAAGGCC ACCCTCCCAC CTTTCATGTG TAATAAACGG GCCGAAGACT 301 TCCAGGGGAA TGATTTGGAT AATGACCCTA ACCGTGGGAA TCAGGTTGAA CGTCCTCAGA 361 TGACTTTCGG CAGGCTCCAG GGAATCTCCC CGAAGATCAT GCCCAAGAAG CCAGCAGAGG 421 AAGGAAATGA TTCGGAGGAA GTGCCAGAAG CATCTGGCCC ACAAAATGAT GGGAAAGAGC 481 TGTGCCCCCC GGGAAAACCA ACTACCTCTG AGAAGATTCA CGAGAGATCT GGACCCAAAA 541 GGGGGGAACA TGCCTGGACC CACAGACTGC CTGAGAGAAA ACAGCTGGTG ATTTATGAAG 601 AGATCAGCGA CCCTGAGGAA GATGACGAGT ACCCAACTTT CTTGTACAAA GTtggcatta 661 taagaaagca ttgcttatca atttgttgca acgaac