Construct: ORF ccsbBroadEn_07532
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF004681.1_s300c1, BRDN0000390721
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PDCD6IP (10015)
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 | 10015 | PDCD6IP | programmed cell death 6 int... | NM_001162429.2 | 99.8% | 99.7% | 19G>A;1147G>A;1551T>C |
| 2 | human | 10015 | PDCD6IP | programmed cell death 6 int... | NM_013374.6 | 99.3% | 99.1% | (many diffs) |
| 3 | human | 10015 | PDCD6IP | programmed cell death 6 int... | XM_011533252.1 | 78.1% | 78.1% | 0_1ins570;577G>A;981T>C |
| 4 | human | 10015 | PDCD6IP | programmed cell death 6 int... | XM_011533253.1 | 78.1% | 78.1% | 0_1ins570;577G>A;981T>C |
| 5 | human | 10015 | PDCD6IP | programmed cell death 6 int... | XM_017005488.1 | 77.5% | 77.5% | (many diffs) |
| 6 | human | 646278 | PDCD6IPP2 | PDCD6IP pseudogene 2 | NR_037599.1 | 49.1% | (many diffs) | |
| 7 | human | 10015 | PDCD6IP | programmed cell death 6 int... | NM_001256192.1 | 29.3% | 28.1% | (many diffs) |
| 8 | mouse | 18571 | Pdcd6ip | programmed cell death 6 int... | NM_001164677.1 | 88.1% | 94.2% | (many diffs) |
| 9 | mouse | 18571 | Pdcd6ip | programmed cell death 6 int... | XM_011242941.2 | 87.8% | 93.9% | (many diffs) |
| 10 | mouse | 18571 | Pdcd6ip | programmed cell death 6 int... | NM_011052.2 | 87.6% | 93.7% | (many diffs) |
| 11 | mouse | 18571 | Pdcd6ip | programmed cell death 6 int... | NM_001164678.1 | 87.3% | 93.3% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2685
- ORF length:
- 2619
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGGC GACATTCATC TCGATGCAGC TGAAAAAGAC CTCAGAGGTG GACCTGGCCA 121 AGCCGCTGGT GAAGTTCATC CAGCAGACTT ACCCAAGCGG CGGGGAAGAG CAGGCCCAGT 181 ACTGCCGCGC GGCGGAGGAG CTCAGCAAGC TGCGCCGCGC CGCAGTCGGT CGTCCGCTGG 241 ACAAGCACGA GGGCGCGCTC GAGACGCTCC TGAGATATTA TGATCAGATT TGTTCTATTG 301 AACCCAAATT CCCATTTTCT GAAAATCAGA TCTGCTTGAC ATTTACCTGG AAGGATGCTT 361 TCGATAAAGG TTCACTTTTT GGAGGCTCTG TAAAACTGGC TCTTGCAAGC TTAGGATATG 421 AAAAGAGCTG TGTGTTGTTC AATTGTGCAG CCTTAGCTAG CCAAATTGCA GCAGAACAGA 481 ACCTGGATAA TGATGAAGGA TTGAAAATCG CTGCTAAACA TTACCAGTTT GCTAGTGGTG 541 CCTTTTTACA TATTAAAGAG ACGGTTTTAT CTGCCTTAAG TCGAGAGCCG ACCGTGGACA 601 TATCTCCAGA TACTGTTGGG ACCCTCAGTC TTATTATGCT GGCACAGGCT CAAGAAGTAT 661 TTTTTTTAAA AGCCACAAGA GATAAAATGA AAGATGCCAT CATAGCTAAA TTGGCTAATC 721 AGGCTGCAGA TTATTTTGGT GATGCTTTCA AACAGTGTCA ATACAAAGAT ACTCTCCCCA 781 AGTATTTTTA TTTCCAGGAG GTGTTCCCTG TCTTGGCTGC AAAGCACTGT ATCATGCAGG 841 CCAATGCTGA GTACCATCAG TCTATCCTGG CAAAACAGCA GAAGAAATTT GGAGAAGAAA 901 TTGCAAGGTT ACAGCATGCA GCAGAACTGA TTAAAACAGT GGCATCTCGC TATGATGAAT 961 ATGTTAATGT GAAGGATTTT TCTGACAAAA TCAATCGTGC CCTTGCTGCA GCAAAGAAGG 1021 ATAATGACTT CATTTATCAT GATCGAGTTC CAGACCTTAA AGATCTAGAT CCTATTGGCA 1081 AAGCCACACT TGTGAAATCT ACCCCGGTCA ATGTACCCAT CAGTCAGAAA TTTACTGATC 1141 TGTTTGAGAA GATGGTTCCC GTGTCAGTAC AGCAGTCTTT GGCTGCCTAT AATCAGAGGA 1201 AAGCCGATTT GATTAACAGA TCAATTGCTC AGATGAGAGA AGCCACCACT TTGGCAAATG 1261 GGGTGCTAGC TTCCCTTAAT CTTCCAGCAG CAATTGAAGA TGTGTCTGGA GACACTGTAC 1321 CTCAGTCTAT ATTGACTAAA TCCAGATCTG TGATTGAACA GGGAGGCATC CAGACTGTTG 1381 ATCAGTTGAT TAAAGAACTG CCTGAATTAC TGCAACGAAA TAGAGAAATC CTAGATGAGT 1441 CATTAAGGTT GTTGGATGAA GAAGAAGCAA CCGATAATGA TTTAAGAGCA AAATTTAAGG 1501 AACGTTGGCA AAGGACACCA TCCAATGAAC TGTATAAGCC TTTAAGAGCA GAGGGAACCA 1561 ACTTCAGAAC AGTTTTAGAT AAAGCTGTGC AGGCAGATGG ACAAGTGAAA GAATGCTACC 1621 AGTCTCATCG TGACACCATC GTGCTTTTGT GTAAGCCAGA GCCTGAGCTG AATGCTGCCA 1681 TCCCTTCTGC TAATCCAGCA AAGACCATGC AGGGCAGTGA GGTTGTAAAT GTCTTAAAAT 1741 CCTTATTGTC AAATCTTGAT GAAGTAAAGA AGGAAAGAGA GGGTCTGGAG AATGACTTGA 1801 AATCTGTGAA TTTTGACATG ACAAGCAAGT TTTTGACAGC CCTGGCTCAA GATGGTGTGA 1861 TAAATGAAGA AGCTCTTTCT GTTACTGAAC TAGATCGAGT CTATGGAGGT CTTACAACTA 1921 AAGTCCAAGA ATCTCTAAAG AAACAGGAGG GACTTCTTAA AAATATTCAG GTCTCACATC 1981 AGGAATTTTC AAAAATGAAA CAATCTAATA ATGAAGCTAA CTTAAGAGAA GAAGTTTTGA 2041 AGAATTTAGC TACTGCATAT GACAACTTTG TTGAACTTGT AGCTAATTTG AAGGAAGGCA 2101 CAAAGTTTTA CAATGAGTTG ACTGAAATCC TGGTCAGGTT CCAGAACAAA TGCAGTGATA 2161 TAGTTTTTGC ACGGAAGACA GAAAGAGATG AACTCTTAAA GGACTTGCAA CAAAGCATTG 2221 CCAGAGAACC TAGTGCTCCT TCAATTCCTA CACCTGCGTA TCAGTCCTCA CCAGCAGGAG 2281 GACATGCACC AACTCCTCCA ACTCCAGCGC CAAGAACCAT GCCGCCTACT AAGCCCCAGC 2341 CCCCAGCCAG GCCTCCACCA CCTGTGCTTC CAGCAAATCG AGCTCCTTCT GCTACTGCTC 2401 CATCTCCAGT GGGGGCTGGG ACTGCTGCGC CAGCTCCATC ACAAACGCCT GGCTCAGCTC 2461 CTCCTCCACA GGCGCAGGGA CCACCCTATC CCACCTATCC AGGATATCCT GGGTATTGCC 2521 AAATGCCCAT GCCCATGGGC TATAATCCTT ATGCGTATGG CCAGTATAAT ATGCCATATC 2581 CACCAGTGTA TCACCAGAGT CCTGGACAGG CTCCATACCC GGGACCCCAG CAGCCTTCAT 2641 ACCCCTTCCC TCAGCCCCCA CAGCAGTCTT ACTATCCACA GCAGTACCCA ACTTTCTTGT 2701 ACAAAGTtgg cattataaga aagcattgct tatcaatttg ttgcaacgaa c