Construct: ORF TRCN0000487931
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF021601.1_s317c1
- DNA Barcode:
- GACCATATAATGACCGGCCAGGGG
- Epitope Tag:
- V5 (not translated due to prior stop codon)
- Notes:
- Has stop codon in insert
Originally Annotated References:
- Gene:
- SSX2 (6757)
Vector Information:
- Vector Backbone:
- pLX_317
- Pol II Cassette 1:
- SV40-PuroR
- Pol II Cassette 2:
- EF1a-TRCN0000487931
- Selection Marker:
- PuroR
- Visible Reporter:
- n/a
- Epitope Tag:
- V5
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 | 99.8% | 100% | 129G>A |
| 2 | human | 6757 | SSX2 | SSX family member 2 | NM_175698.2 | 99.8% | 100% | 129G>A |
| 3 | human | 10214 | SSX3 | SSX family member 3 | NM_021014.4 | 95.2% | 90.9% | (many diffs) |
| 4 | human | 6758 | SSX5 | SSX family member 5 | NM_175723.1 | 92.9% | 84% | (many diffs) |
| 5 | human | 6758 | SSX5 | SSX family member 5 | XM_011543949.2 | 92.9% | 84% | (many diffs) |
| 6 | human | 6758 | SSX5 | SSX family member 5 | XM_017029758.2 | 92.9% | 84% | (many diffs) |
| 7 | human | 280658 | SSX7 | SSX family member 7 | NM_173358.2 | 92% | 85.6% | (many diffs) |
| 8 | human | 548313 | SSX4B | SSX family member 4B | NM_001034832.3 | 91.1% | 79.7% | (many diffs) |
| 9 | human | 6759 | SSX4 | SSX family member 4 | NM_005636.4 | 91.1% | 79.7% | (many diffs) |
| 10 | human | 548313 | SSX4B | SSX family member 4B | XM_017029613.1 | 91.1% | 79.7% | (many diffs) |
| 11 | human | 6759 | SSX4 | SSX family member 4 | XM_017029759.1 | 91.1% | 79.7% | (many diffs) |
| 12 | human | 6756 | SSX1 | SSX family member 1 | NM_001278691.2 | 89% | 78.1% | (many diffs) |
| 13 | human | 6756 | SSX1 | SSX family member 1 | NM_005635.4 | 89% | 78.1% | (many diffs) |
| 14 | human | 6757 | SSX2 | SSX family member 2 | NM_001278697.1 | 87.6% | 87.8% | 129G>A;465_542del |
| 15 | human | 727837 | SSX2B | SSX family member 2B | NM_001278702.2 | 87.6% | 87.8% | 129G>A;465_542del |
| 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 | 78% | 72.1% | (many diffs) |
| 18 | human | 6758 | SSX5 | SSX family member 5 | NM_021015.4 | 76.2% | 68.9% | (many diffs) |
| 19 | human | 727837 | SSX2B | SSX family member 2B | NM_001278701.2 | 73.5% | 72% | 129G>A;466_611del;669_670ins41 |
| 20 | human | 6757 | SSX2 | SSX family member 2 | NM_003147.5 | 73.5% | 72% | 129G>A;466_611del;669_670ins41 |
| 21 | human | 548313 | SSX4B | SSX family member 4B | NM_001040612.2 | 65.7% | 45.8% | (many diffs) |
| 22 | human | 6759 | SSX4 | SSX family member 4 | NM_175729.1 | 65.7% | 45.8% | (many diffs) |
| 23 | human | 280658 | SSX7 | SSX family member 7 | XM_017029431.1 | 63.4% | 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 | 39.8% | (many diffs) | |
| 26 | human | 280659 | SSX8P | SSX family member 8, pseudo... | NR_027250.2 | 35.1% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 72
- ORF end:
- 636
- ORF length:
- 564
- Sequence:
-
1 tcttccattt caggtgtcgt gaggctagca tcgattgatc aacaagtttg tacaaaaaag 61 caggcttcac catgaacgga gacgacgcct ttgcaaggag acccacggtt ggtgctcaaa 121 taccagagaa gatccaaaag gccttcgatg atattgccaa atacttctct aaggaagagt 181 gggaaaagat gaaagcctca gagaaaatct tctatgtgta tatgaagaga aagtatgagg 241 ctatgactaa actaggtttc aaggccaccc tcccaccttt catgtgtaat aaacgggccg 301 aagacttcca ggggaatgat ttggataatg accctaaccg tgggaatcag gttgaacgtc 361 cTCAGATGAC TTTCGGCAGG CTCCAGGGAA TCTCCCCGAA GATCATGCCC AAGAAGCCAG 421 CAGAGGAAGG AAATGATTCG GAGGAAGTGC CAGAAGCATC TGGCCCACAA AATGATGGGA 481 AAGAGCTGTG CCCCCCGGGA AAACCAACTA CCTCTGAGAA GATTCACGAG AGATCTGGAC 541 CCAAAAGGGG GGAACATGCC TGGACCCACA GACTGCGTGA GAGAAAACAG CTGGTGATTT 601 ATGAAGAGAT CAGCGACCCT GAGGAAGATG ACGAGTAGAA CCCAGCTTTC TTGTACAAAG 661 TGGTTGATAT CGGTAAGCCT ATCCCTAACC CTCTCCTCGG TCTCGATTCT ACGTAGTAAT 721 GAACTAGTCC GTAACTTGAA AGTATTTCGA TTTCTTGGCT TTATATATCT TGTGGAAAGG 781 ACGAGACCAT ATAATGACCG GCCAGGGGAC GCGTTAAGTC gacaatcaac ctctggatta 841 caaaatttgt gaaagatt