Construct: ORF ccsbBroadEn_08631
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF017667.1_s300c1, BRDN0000457143
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PCDHA8 (56140)
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 | 56140 | PCDHA8 | protocadherin alpha 8 | NM_031856.1 | 99.8% | 99.6% | 233G>A;1251A>C;1735A>G |
| 2 | human | 56142 | PCDHA6 | protocadherin alpha 6 | NM_031848.3 | 89.7% | 87.7% | (many diffs) |
| 3 | human | 56140 | PCDHA8 | protocadherin alpha 8 | NM_018911.3 | 84.8% | 83.1% | (many diffs) |
| 4 | human | 56142 | PCDHA6 | protocadherin alpha 6 | NM_018909.4 | 77.4% | 74.3% | (many diffs) |
| 5 | human | 56142 | PCDHA6 | protocadherin alpha 6 | NM_031849.3 | 71.6% | 57.1% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 2511
- ORF length:
- 2442
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GGATTATCAC TGGCGAGGAG AGCTGGGATC CTGGCGACTA CTACTCTTGC 121 TTCTGCTCCT CGCAGCCTGG AAGGTGGGGA GCGGCCAGCT CCACTACTCC GTCCCCGAGG 181 AGGCCAAACA CGGCACCTTC GTGGGCCGGA TCGCGCAGGA CCTGGGGCTG GAGCTGGCGG 241 AGCTGGTGCC GCGCCTGTTC CGGGTGGCGT CCAAAAGACA CCGGGACCTT CTGGAGGTAA 301 ATCTGCAGAA TGGCATTTTG TTTGTGAATT CTCGGATCGA CCGCGAGGAG CTGTGCGGGC 361 GGAGCGCGGA GTGCAGCATC CACCTGGAGG TGATCGTGGA CAGGCCGCTG CAGGTTTTCC 421 ATGTGGACGT GGAGGTGAAG GATGTTAATG ACAACCCGCC AGTGTTCCGG GTAAAAGACC 481 AAAAGCTGTT TGTTTCAGAA TCCAGAATGC CAGACTCTCG GTTTCCGCTA GAGGGCGCGT 541 CCGATGCAGA TGTTGGAGCT AACTCCGTGT TAACCTACAG GCTTAGCTCT CATGATTACT 601 TCATGCTAGA TGTGAATTCA AAGAACGATG AGAATAAACT GGTTGAGCTC GTATTAAGAA 661 AATCCTTGGA CAGAGAGGAC GCTCCTGCGC ACCACTTATT CCTGACAGCC ACAGATGGGG 721 GCAAACCTGA GCTCACAGGC ACTGTTCAGC TGCTGGTCAC AGTGCTGGAT GTGAATGATA 781 ATGCTCCCAC TTTCGAACAG TCTGAATACG AAGTAAGAAT ATTCGAAAAC GCAGACAACG 841 GAACAACAGT TATCAAACTG AATGCTTCTG ATCCGGATGA AGGAGCCAAT GGGGCAATTT 901 CATATTCTTT TAATAGCCTT GTTGAAACTA TGGTTATTGA CCACTTTAGC ATAGATCGAA 961 ATACGGGAGA AATAGTGATT CGGGGTAATT TGGATTTTGA ACAAGAAAAC TTATACAAAA 1021 TCCTCATTGA CGCCACGGAC AAAGGCCATC CTCCCATGGC GGGTCATTGC ACCGTTTTAG 1081 TGAGAATTTT GGATAAAAAT GATAACGTCC CTGAGATAGC ACTGACTTCC TTATCCTTGC 1141 CTGTACGTGA AGACGCTCAA TTTGGTACTG TCATCGCCCT AATTAGCGTG AACGACCTCG 1201 ATTCAGGTGC CAACGGGCAG GTGACCTGCT CCCTGATGCC CCATGTCCCC TTCAAGCTGG 1261 TGTCCACCTT CAAGAATTAC TACTCGTTGG TGCTGGACAG CGCCCTGGAC CGCGAGAGCG 1321 TGTCGGCCTA TGAGTTGGTG GTAACCGCGC GGGACGGGGG CTCGCCTTCG CTGTGGGCCA 1381 CCGCCAGCTT GTCTGTGGAG GTGGCCGACG TGAACGACAA TGCTCCGGCG TTCGCGCAGC 1441 CCGAGTACAC GGTGTTCGTG AAGGAGAACA ACCCGCCGGG CTGCCACATC TTCACGGTGT 1501 CTGCGCGAGA CGCGGACGCG CAGGAGAACG CGCTGGTGTC CTACTCGCTT GTGGAGCGGC 1561 GGGTGGGCGA GCGCTCGCTG TCGAGCTACA TTTCGGTGCA CACGGAGAGC GGCAAGGTGT 1621 ACGCGCTGCA GCCGCTGGAC CACGAGGAGC TAGAGCTGCT GCAGTTCCAG GTGAGCGCGC 1681 GCGACGCGGG CGTGCCGCCT CTGGGCAGCA ACGTGACGCT GCAGGTGTTC GTGCTGGACG 1741 AGAATGACAA CGCGCCGGCA CTGCTGGAGC CTCGGGTGGG TGGCACTGGT GGCGCAGCGA 1801 GCGAGCTGGT GCCGCGGTCT GTGGGCGCGG GCCACGTGGT AGCGAAGGTG CGCGCAGTGG 1861 ACGCCGACTC GGGCTACAAC GCGTGGCTTT CGTATGAGCT GCAGCCAGCT GCAAGCAGCC 1921 CTCGCATCCC GTTCCGCGTG GGGCTGTACA CGGGCGAGAT CAGCACCACT CGTGTCCTGG 1981 ACGAAGCGGA CTCTCCGCGC CACCGTCTGC TGGTCCTGGT GAAGGATCAT GGTGAACCTG 2041 CGCTGACCGC CACGGCCACG GTTCTGGTGT CGCTGGTGGA GAGCGGCCAG GCTCCAAAAG 2101 CGTCATCGAG GCAGTCGGCT GGCGTTTTGG GTCCGGAAGC GGCGCTGGTG GATGTCAACG 2161 TGTACCTGAT CATCGCCATC TGCGCGGTAT CCAGCCTGCT GGTGCTCACG CTGCTGCTGT 2221 ACACTGCGCT GCGGTGCTCA GCACTGCCCA CTGAGGGCGG GTGCCGGGCG GGCAAGCCCA 2281 CTCTGGTGTG CTCCAGTGCG GTGGGGAGCT GGTCATACTC GCAACAACAG CCGCAGAGGG 2341 TGTGCTCTGG TGAGGGGCCA CCGAAGACGG ACCTCATGGC CTTCAGCCCC TGCCTTCCTC 2401 CTGATCTGGG ATCAGTTGAT GTAGGCGAAG AGCAAGATTT AAATGTTGAT CATGGCCTCA 2461 AAGTAAGTCC ATTTAAATTT AGAACTCATA AATTCTATTT GTGGAAATTG TTGCCAACTT 2521 TCTTGTACAA AGTTGGcatt ataagaaagc attgcttatc aatttgttgc aacgaac