Construct: ORF ccsbBroadEn_07002
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF016413.1_s300c1, BRDN0000387543
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SSX5 (6758)
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 | 6758 | SSX5 | SSX family member 5 | NM_021015.4 | 99.7% | 99.5% | 55G>C;492G>A |
| 2 | human | 6758 | SSX5 | SSX family member 5 | NM_175723.1 | 81.8% | 81.6% | 55G>C;68_69ins123;369G>A |
| 3 | human | 6758 | SSX5 | SSX family member 5 | XM_011543949.2 | 81.8% | 81.6% | 55G>C;68_69ins123;369G>A |
| 4 | human | 6758 | SSX5 | SSX family member 5 | XM_017029758.2 | 81.8% | 81.6% | 55G>C;68_69ins123;369G>A |
| 5 | human | 10214 | SSX3 | SSX family member 3 | NM_021014.4 | 76.2% | 68.9% | (many diffs) |
| 6 | human | 727837 | SSX2B | SSX family member 2B | NM_001164417.3 | 76.1% | 68.5% | (many diffs) |
| 7 | human | 6757 | SSX2 | SSX family member 2 | NM_175698.2 | 76.1% | 68.5% | (many diffs) |
| 8 | human | 280658 | SSX7 | SSX family member 7 | NM_173358.2 | 75.6% | 67.6% | (many diffs) |
| 9 | human | 6756 | SSX1 | SSX family member 1 | NM_001278691.2 | 74.2% | 62.8% | (many diffs) |
| 10 | human | 6756 | SSX1 | SSX family member 1 | NM_005635.4 | 74.2% | 62.8% | (many diffs) |
| 11 | human | 548313 | SSX4B | SSX family member 4B | NM_001034832.3 | 73.5% | 63.7% | (many diffs) |
| 12 | human | 6759 | SSX4 | SSX family member 4 | NM_005636.4 | 73.5% | 63.7% | (many diffs) |
| 13 | human | 548313 | SSX4B | SSX family member 4B | XM_017029613.1 | 73.5% | 63.7% | (many diffs) |
| 14 | human | 6759 | SSX4 | SSX family member 4 | XM_017029759.1 | 73.5% | 63.7% | (many diffs) |
| 15 | human | 6757 | SSX2 | SSX family member 2 | NM_001278697.1 | 68.3% | 61.5% | (many diffs) |
| 16 | human | 727837 | SSX2B | SSX family member 2B | NM_001278702.2 | 68.3% | 61.5% | (many diffs) |
| 17 | human | 10214 | SSX3 | SSX family member 3 | XM_011543885.2 | 66.5% | 54.1% | (many diffs) |
| 18 | human | 280658 | SSX7 | SSX family member 7 | XM_017029430.1 | 65.6% | 58.7% | (many diffs) |
| 19 | human | 727837 | SSX2B | SSX family member 2B | NM_001278701.2 | 57.9% | 45.6% | (many diffs) |
| 20 | human | 6757 | SSX2 | SSX family member 2 | NM_003147.5 | 57.9% | 45.6% | (many diffs) |
| 21 | human | 548313 | SSX4B | SSX family member 4B | NM_001040612.2 | 54.1% | 41.1% | (many diffs) |
| 22 | human | 6759 | SSX4 | SSX family member 4 | NM_175729.1 | 54.1% | 41.1% | (many diffs) |
| 23 | human | 280658 | SSX7 | SSX family member 7 | XM_017029431.1 | 52.2% | 39.9% | (many diffs) |
| 24 | human | 280657 | SSX6P | SSX family member 6, pseudo... | NR_028366.1 | 36.2% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 753
- ORF length:
- 687
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGAA CGGAGACGAT GCCTTTGTAC GGAGACCTAG GGTTGGTTCT CAAATACCAC 121 AGAAGATGCA AAAGCATCCC TGGAGACAAG TCTGTGACCG TGGAATACAT TTGGTGAATC 181 TCAGTCCGTT CTGGAAGGTG GGAAGAGAGC CAGCCAGCAG CATTAAAGCT CTACTGTGTG 241 GCAGGGGAGA AGCTAGGGCC TTCGATGATA TTGCCAAATA CTTCTCTGAG AAAGAGTGGG 301 AAAAGATGAA AGCCTCGGAG AAAATCATCT ATGTGTATAT GAAGAGAAAG TATGAGGCCA 361 TGACTAAACT AGGTTTCAAG GCCACCCTCC CACCTTTCAT GCGTAATAAA CGGGTCGCAG 421 ACTTCCAGGG GAATGATTTT GATAATGACC CTAACCGTGG GAATCAGGTT GAACATCCTC 481 AGATGACTTT CGGCAGGCTC CAGGGAATCT TCCCGAAGAT CACGCCCGAG AAGCCAGCAG 541 AGGAAGGAAA TGATTCAAAG GGAGTGCCAG AAGCATCTGG CCCACAGAAC AATGGGAAAC 601 AGCTGCGCCC CTCAGGAAAA CTAAATACCT CTGAGAAGGT TAACAAGACA TCTGGACCCA 661 AAAGGGGGAA ACATGCCTGG ACCCACAGAG TGCGTGAGAG AAAGCAACTG GTGATTTATG 721 AAGAGATCAG CGACCCTCAG GAAGATGACG AGTACCCAAC TTTCTTGTAC AAAGTtggca 781 ttataagaaa gcattgctta tcaatttgtt gcaacgaac