Construct: ORF ccsbBroadEn_03707
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF005982.1_s300c1, BRDN0000398163
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PCDHA10 (56139)
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 | 56139 | PCDHA10 | protocadherin alpha 10 | NM_031860.3 | 100% | 100% | |
| 2 | human | 56142 | PCDHA6 | protocadherin alpha 6 | NM_031849.3 | 83% | 81.6% | (many diffs) |
| 3 | human | 56139 | PCDHA10 | protocadherin alpha 10 | NM_018901.4 | 72.2% | 72.2% | 1598_2386del |
| 4 | human | 56139 | PCDHA10 | protocadherin alpha 10 | NM_031859.3 | 71.4% | 61.3% | (many diffs) |
| 5 | human | 56137 | PCDHA12 | protocadherin alpha 12 | NM_018903.4 | 60.7% | 60.2% | (many diffs) |
| 6 | human | 56143 | PCDHA5 | protocadherin alpha 5 | NM_018908.3 | 60.6% | 59.3% | (many diffs) |
| 7 | human | 56142 | PCDHA6 | protocadherin alpha 6 | NM_018909.4 | 60.3% | 58.9% | (many diffs) |
| 8 | human | 56144 | PCDHA4 | protocadherin alpha 4 | NM_018907.4 | 60% | 58.4% | (many diffs) |
| 9 | human | 56145 | PCDHA3 | protocadherin alpha 3 | NM_018906.3 | 59.7% | 57.7% | (many diffs) |
| 10 | human | 56138 | PCDHA11 | protocadherin alpha 11 | NM_018902.4 | 59.7% | 58.7% | (many diffs) |
| 11 | human | 56140 | PCDHA8 | protocadherin alpha 8 | NM_018911.3 | 59.5% | 58.6% | (many diffs) |
| 12 | human | 9752 | PCDHA9 | protocadherin alpha 9 | NM_031857.1 | 59.5% | 59.4% | (many diffs) |
| 13 | mouse | 192161 | Pcdha9 | protocadherin alpha 9 | NM_138661.1 | 60.7% | 60.5% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 2124
- ORF length:
- 2055
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GGTTTCCAGA TGTAGCTGCC TGGGGGTCCA GTGTCTGCTG CTCTCGCTTC 121 TTCTCCTCGC AGCCTGGGAG GTGGGGAGCG GCCAGCTCCA CTACTCAGTC TACGAGGAGG 181 CCAGACACGG CACCTTCGTG GGCCGCATCG CGCAGGACCT GGGGCTGGAG CTGGCGGAGC 241 TGGTGCAGCG CCTGTTCCGG GTGGCGTCCA AAAGACACGG GGACCTTCTG GAGGTAAATC 301 TGCAGAATGG CATTTTGTTT GTGAATTCTC GGATTGACCG CGAGGAGCTG TGCGGGCGGA 361 GCGTGGAGTG CAGCATCCAC CTGGAGGTGA TCGTGGACAG GCCGCTGCAG GTTTTCCATG 421 TGGACGTGGA AGTGAAGGAC ATTAACGACA ACCCGCCCAG GTTCTCCGTA ACAGAACAAA 481 AGCTCTCAAT ACCTGAATCC AGACTGCTTG ACTCTCGATT TCCACTAGAA GGCGCATCTG 541 ATGCGGATGT TGGAGAGAAC GCATTGCTTA CTTACAAACT CAGTCCAAAT GAGTATTTTG 601 TTCTTGATAT TATAAACAAA AAAGACAAAG ACAAATTCCC AGTGCTTGTT CTGCGGAAGC 661 TGCTGGATCG TGAAGAAAAT CCTCAGCTAA AGTTGTTGTT GACAGCAACT GATGGAGGCA 721 AACCTGAATT TACCGGATCT GTTTCTCTGC TGATCCTGGT GTTAGATGCC AATGATAACG 781 CCCCTATCTT TGACAGACCG GTTTATGAAG TTAAGATGTA TGAAAATCAA GTGAACCAAA 841 CATTAGTAAT ACGGCTCAAC GCTTCTGATT CGGATGAAGG AATAAACAAG GAAATGATGT 901 ATTCATTTAG CTCTTTGGTC CCACCCACGA TAAGAAGGAA ATTTTGGATA AACGAAAGGA 961 CGGGAGAAAT AAAAGTAAAT GATGCTATTG ACTTTGAGGA CAGTAACACT TATGAAATTC 1021 ATGTAGATGT TACAGATAAG GGAAACCCAC CTATGGTTGG TCACTGCACG GTCCTAGTGG 1081 AACTACTGGA TGAAAATGAT AATTCACCTG AGGTGATTGT CACTTCTCTG TCTCTCCCAG 1141 TGAAAGAAGA TGCTCAAGTG GGCACCGTCA TTGCCCTAAT CAGCGTTTCT GACCATGATT 1201 CAGGAGCCAA CGGACAGGTC ACCTGCTCTC TGACGCCTCA CGTTCCGTTC AAGCTGGTGT 1261 CCACCTACAA GAATTACTAC TCATTGGTGC TGGACAGCGC TCTGGACCGC GAGAGGGTGT 1321 CGGCCTATGA GCTGGTGGTG ACCGCGCGGG ACGGGGGCTC GCCTCCGCTG TGGGCCACGG 1381 CCAGCGTGTC TGTGGAGGTG GCCGACGTGA ACGACAACGC GCCTGCGTTC GCGCAGTCCG 1441 AGTACACGGT GTTCGTGAAG GAGAACAACC CGCCAGGCTG CCACATCTTC ACGGTGTCTG 1501 CGTGGGACGC GGACGCGCAG GAGAACGCCC TGGTGTCCTA CTCTCTGGTG GAGCGGCGGT 1561 TGGGCGAGCG CTCGCTGTCG AGCTACGTGT CGGTGCACGC GGAGAGCGGC AAGGTGTACG 1621 CGCTGCAGCC GCTGGACCAC GAGGAGCTGG AGCTGCTACA GTTCCAGCCA CGACAGCCCA 1681 ACCCTGACTG GCGTTACTCT GCCTCCCTGA GAGCAGGCAT GCACAGCTCT GTGCACCTAG 1741 AGGAGGCTGG CATTCTACGG GCTGGTCCAG GAGGGCCTGA TCAGCAGTGG CCAACAGTAT 1801 CCAGTGCAAC ACCAGAACCA GAGGCAGGAG AAGTGTCCCC TCCAGTCGGT GCGGGTGTCA 1861 ACAGCAACAG CTGGACCTTT AAATACGGAC CAGGCAACCC CAAACAATCC GGTCCCGGTG 1921 AGTTGCCCGA CAAATTCATT ATCCCAGGAT CTCCTGCAAT CATCTCCATC CGGCAGGAGC 1981 CTACTAACAG CCAAATTGAC AAAAGTGACT TCATAACCTT CGGCAAAAAG GAGGAGACCA 2041 AGAAAAAGAA GAAAAAGAAG AAGGGTAACA AGACCCAGGA GAAAAAAGAG AAAGGGAACA 2101 GCACGACTGA CAACAGTGAC CAGTTGCCAA CTTTCTTGTA CAAAGTtggc attataagaa 2161 agcattgctt atcaatttgt tgcaacgaac