Construct: ORF ccsbBroadEn_00961
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF002401.1_s300c1, BRDN0000393690
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SMAD2 (4087)
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 | 4087 | SMAD2 | SMAD family member 2 | NM_001003652.4 | 100% | 100% | |
| 2 | human | 4087 | SMAD2 | SMAD family member 2 | NM_005901.6 | 100% | 100% | |
| 3 | human | 4087 | SMAD2 | SMAD family member 2 | XM_005258259.4 | 100% | 100% | |
| 4 | human | 4087 | SMAD2 | SMAD family member 2 | XM_006722451.4 | 100% | 100% | |
| 5 | human | 4087 | SMAD2 | SMAD family member 2 | XM_017025745.2 | 100% | 100% | |
| 6 | human | 4087 | SMAD2 | SMAD family member 2 | XM_024451173.1 | 100% | 100% | |
| 7 | human | 4087 | SMAD2 | SMAD family member 2 | NM_001135937.2 | 93.5% | 93.5% | 234_235ins90 |
| 8 | human | 4087 | SMAD2 | SMAD family member 2 | XM_017025746.2 | 93.5% | 93.5% | 234_235ins90 |
| 9 | human | 4087 | SMAD2 | SMAD family member 2 | XM_011525984.2 | 84.8% | 82.1% | (many diffs) |
| 10 | human | 4087 | SMAD2 | SMAD family member 2 | XM_011525985.3 | 83.9% | 81.3% | (many diffs) |
| 11 | human | 4087 | SMAD2 | SMAD family member 2 | XM_017025748.2 | 83.9% | 81.3% | (many diffs) |
| 12 | human | 4087 | SMAD2 | SMAD family member 2 | XM_017025747.2 | 80.3% | 80.6% | 0_1ins218;19_89del |
| 13 | human | 4088 | SMAD3 | SMAD family member 3 | NM_005902.4 | 69.3% | 83.9% | (many diffs) |
| 14 | human | 4088 | SMAD3 | SMAD family member 3 | XM_011521559.3 | 62% | 75.3% | (many diffs) |
| 15 | human | 4087 | SMAD2 | SMAD family member 2 | XM_017025749.1 | 54.3% | 52.2% | (many diffs) |
| 16 | human | 4087 | SMAD2 | SMAD family member 2 | XM_017025750.2 | 48.6% | 48.6% | 0_1ins720 |
| 17 | mouse | 17126 | Smad2 | SMAD family member 2 | NM_001252481.1 | 92.2% | 99.5% | (many diffs) |
| 18 | mouse | 17126 | Smad2 | SMAD family member 2 | NM_010754.5 | 92.2% | 99.5% | (many diffs) |
| 19 | mouse | 17126 | Smad2 | SMAD family member 2 | XM_006525699.2 | 92.2% | 99.5% | (many diffs) |
| 20 | mouse | 17126 | Smad2 | SMAD family member 2 | NM_001311070.1 | 86% | 93.5% | (many diffs) |
| 21 | mouse | 17126 | Smad2 | SMAD family member 2 | XM_017317842.1 | 86% | 93.5% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 1467
- ORF length:
- 1401
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGTC GTCCATCTTG CCATTCACGC CGCCAGTTGT GAAGAGACTG CTGGGATGGA 121 AGAAGTCAGC TGGTGGGTCT GGAGGAGCAG GCGGAGGAGA GCAGAATGGG CAGGAAGAAA 181 AGTGGTGTGA GAAAGCAGTG AAAAGTCTGG TGAAGAAGCT AAAGAAAACA GGACGATTAG 241 ATGAGCTTGA GAAAGCCATC ACCACTCAAA ACTGTAATAC TAAATGTGTT ACCATACCAA 301 GCACTTGCTC TGAAATTTGG GGACTGAGTA CACCAAATAC GATAGATCAG TGGGATACAA 361 CAGGCCTTTA CAGCTTCTCT GAACAAACCA GGTCTCTTGA TGGTCGTCTC CAGGTATCCC 421 ATCGAAAAGG ATTGCCACAT GTTATATATT GCCGATTATG GCGCTGGCCT GATCTTCACA 481 GTCATCATGA ACTCAAGGCA ATTGAAAACT GCGAATATGC TTTTAATCTT AAAAAGGATG 541 AAGTATGTGT AAACCCTTAC CACTATCAGA GAGTTGAGAC ACCAGTTTTG CCTCCAGTAT 601 TAGTGCCCCG ACACACCGAG ATCCTAACAG AACTTCCGCC TCTGGATGAC TATACTCACT 661 CCATTCCAGA AAACACTAAC TTCCCAGCAG GAATTGAGCC ACAGAGTAAT TATATTCCAG 721 AAACGCCACC TCCTGGATAT ATCAGTGAAG ATGGAGAAAC AAGTGACCAA CAGTTGAATC 781 AAAGTATGGA CACAGGCTCT CCAGCAGAAC TATCTCCTAC TACTCTTTCC CCTGTTAATC 841 ATAGCTTGGA TTTACAGCCA GTTACTTACT CAGAACCTGC ATTTTGGTGT TCGATAGCAT 901 ATTATGAATT AAATCAGAGG GTTGGAGAAA CCTTCCATGC ATCACAGCCC TCACTCACTG 961 TAGATGGCTT TACAGACCCA TCAAATTCAG AGAGGTTCTG CTTAGGTTTA CTCTCCAATG 1021 TTAACCGAAA TGCCACGGTA GAAATGACAA GAAGGCATAT AGGAAGAGGA GTGCGCTTAT 1081 ACTACATAGG TGGGGAAGTT TTTGCTGAGT GCCTAAGTGA TAGTGCAATC TTTGTGCAGA 1141 GCCCCAATTG TAATCAGAGA TATGGCTGGC ACCCTGCAAC AGTGTGTAAA ATTCCACCAG 1201 GCTGTAATCT GAAGATCTTC AACAACCAGG AATTTGCTGC TCTTCTGGCT CAGTCTGTTA 1261 ATCAGGGTTT TGAAGCCGTC TATCAGCTAA CTAGAATGTG CACCATAAGA ATGAGTTTTG 1321 TGAAAGGGTG GGGAGCAGAA TACCGAAGGC AGACGGTAAC AAGTACTCCT TGCTGGATTG 1381 AACTTCATCT GAATGGACCT CTACAGTGGT TGGACAAAGT ATTAACTCAG ATGGGATCCC 1441 CTTCAGTGCG TTGCTCAAGC ATGTCATACC CAACTTTCTT GTACAAAGTt ggcattataa 1501 gaaagcattg cttatcaatt tgttgcaacg aac