Construct: ORF ccsbBroadEn_01604
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF002686.1_s300c1, BRDN0000394291
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SSX1 (6756)
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 | 6756 | SSX1 | SSX family member 1 | NM_001278691.2 | 100% | 100% | |
| 2 | human | 6756 | SSX1 | SSX family member 1 | NM_005635.4 | 100% | 100% | |
| 3 | human | 548313 | SSX4B | SSX family member 4B | NM_001034832.3 | 89.5% | 79.2% | (many diffs) |
| 4 | human | 6759 | SSX4 | SSX family member 4 | NM_005636.4 | 89.5% | 79.2% | (many diffs) |
| 5 | human | 548313 | SSX4B | SSX family member 4B | XM_017029613.1 | 89.5% | 79.2% | (many diffs) |
| 6 | human | 6759 | SSX4 | SSX family member 4 | XM_017029759.1 | 89.5% | 79.2% | (many diffs) |
| 7 | human | 10214 | SSX3 | SSX family member 3 | NM_021014.4 | 89.5% | 77.6% | (many diffs) |
| 8 | human | 280658 | SSX7 | SSX family member 7 | NM_173358.2 | 89.3% | 79.2% | (many diffs) |
| 9 | human | 727837 | SSX2B | SSX family member 2B | NM_001164417.3 | 89.2% | 78.1% | (many diffs) |
| 10 | human | 6757 | SSX2 | SSX family member 2 | NM_175698.2 | 89.2% | 78.1% | (many diffs) |
| 11 | human | 6758 | SSX5 | SSX family member 5 | NM_175723.1 | 89.2% | 77.1% | (many diffs) |
| 12 | human | 6758 | SSX5 | SSX family member 5 | XM_011543949.2 | 89.2% | 77.1% | (many diffs) |
| 13 | human | 6758 | SSX5 | SSX family member 5 | XM_017029758.2 | 89.2% | 77.1% | (many diffs) |
| 14 | human | 6757 | SSX2 | SSX family member 2 | NM_001278697.1 | 78.4% | 68.6% | (many diffs) |
| 15 | human | 727837 | SSX2B | SSX family member 2B | NM_001278702.2 | 78.4% | 68.6% | (many diffs) |
| 16 | human | 10214 | SSX3 | SSX family member 3 | XM_011543885.2 | 77.7% | 58.2% | (many diffs) |
| 17 | human | 280658 | SSX7 | SSX family member 7 | XM_017029430.1 | 75.4% | 66.8% | (many diffs) |
| 18 | human | 6758 | SSX5 | SSX family member 5 | NM_021015.4 | 74.3% | 63.3% | (many diffs) |
| 19 | human | 548313 | SSX4B | SSX family member 4B | NM_001040612.2 | 65.3% | 42.6% | (many diffs) |
| 20 | human | 6759 | SSX4 | SSX family member 4 | NM_175729.1 | 65.3% | 42.6% | (many diffs) |
| 21 | human | 727837 | SSX2B | SSX family member 2B | NM_001278701.2 | 65.3% | 47.9% | (many diffs) |
| 22 | human | 6757 | SSX2 | SSX family member 2 | NM_003147.5 | 65.3% | 47.9% | (many diffs) |
| 23 | human | 280658 | SSX7 | SSX family member 7 | XM_017029431.1 | 61.4% | 44.1% | (many diffs) |
| 24 | human | 280657 | SSX6P | SSX family member 6, pseudo... | NR_028366.1 | 40.2% | (many diffs) | |
| 25 | human | 280659 | SSX8P | SSX family member 8, pseudo... | NR_027250.2 | 37.3% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 633
- ORF length:
- 564
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GAACGGAGAC GACACCTTTG CAAAGAGACC CAGGGATGAT GCTAAAGCAT 121 CAGAGAAGAG AAGCAAGGCC TTTGATGATA TTGCCACATA CTTCTCTAAG AAAGAGTGGA 181 AAAAGATGAA ATACTCGGAG AAAATCAGCT ATGTGTATAT GAAGAGAAAC TATAAGGCCA 241 TGACTAAACT AGGTTTCAAA GTCACCCTCC CACCTTTCAT GTGTAATAAA CAGGCCACAG 301 ACTTCCAGGG GAATGATTTT GATAATGACC ATAACCGCAG GATTCAGGTT GAACATCCTC 361 AGATGACTTT CGGCAGGCTC CACAGAATCA TCCCGAAGAT CATGCCCAAG AAGCCAGCAG 421 AGGACGAAAA TGATTCGAAG GGAGTGTCAG AAGCATCTGG CCCACAAAAC GATGGGAAAC 481 AACTGCACCC CCCAGGAAAA GCAAATATTT CTGAGAAGAT TAATAAGAGA TCTGGACCCA 541 AAAGGGGGAA ACATGCCTGG ACCCACAGAC TGCGTGAGAG AAAGCAGCTG GTGATTTATG 601 AAGAGATCAG TGACCCTGAG GAAGATGACG AGTTGCCAAC TTTCTTGTAC AAAGTtggca 661 ttataagaaa gcattgctta tcaatttgtt gcaacgaac