presentation, part 1 - Molecular Evolution

“Phylogenomics Toolkit”Table 2: Primer InformationLocus Forward Primer Sequence Reverse Primer Sequence Gene Hg18 ChrPCR Size(bp)NEWLY DESIGNEDABCA1 Newly Designed CCTCCATCTTTTCAGCTCTACCTAC ~9kb (11 nuclear ACAAGAGCCTGGAGATTGGATAAC loci across 9 chromosomes)ATP-binding cassette sub-family A member 1 Chr9 638AXIN1 CTCTGCCTTCGCTGTACCGTCTAC GACCCACCTTTCCTAATCCTTGTC axin 1 isoform a Chr16 995CFTR-Pair A CTGTGATAGAACAGTTTCCTGGG GCTTCTATCCTGTGTTCACAGAG cystic fibrosis transmembrane conductance Chr7 839CFTR-Pair B CTCTGTGAACACAGGATAGAAGC TTACCTCCAGGAGGCTCAAAAGCC cystic fibrosis transmembrane conductance Chr7 815ERC2 AGCTCATCCTCCTCCTGGTTTAG CTCCTTGAGGATCTCCAGCAAC cytomatrix protein p110 Chr3 790LRPPRC-Pair A CTGGAGACAGCTTTTGTGTTATCC ACCTTAGAGGCTGAAAGTGACTG leucine-rich PPR motif-containing protein Chr2 916LRPPRC-Pair B GACACAGGGAGTCTACACAAACAC GATGCCAGAGCTCTCCTACAG leucine-rich PPR motif-containing protein Chr2 818LUC7L CAGCAGTCCAGAAGGTGACTCTTG GCAGATGGGTACAGTATGTGTTGG LUC7-like isoform a Chr16 728Non-coding CCAGATGACTTAGAAATCTCTCCC GCTTCTTATGATGGTCTGAGTTGG none Chr15 850SRBEF2 AAGACGCTCAGGACAATCACAC CTTCCTGTGCCTCTCCTTTAAC sterol regulatory element-binding transcription Chr22 715ZNF202 AAGTGATATCCTCTGCTGAAGC CCAGACTCCAGATTGGGAAA zinc finger protein 202 Chr11 861PUBLISHEDMITO COII AACCATTTCATAACTTTGTCA CTCTTTAATCTTTAACTTAAAAG Cytochrome oxidase II mitochondrialPreviously MITO CYTB CGAAGCTTGATATGAAAAACCATCGTT Published ~7.5kb (7 AACTGCAGTCATCTCCGGTTTACAAGAC nuclear & mtDNA) Cytochrome b mitochondrialADORA3 TGGACTTCAAGTCTCCCGATGACCCCAGC CCAAGCTCCCCAGTCATCCTGGTCAAA Adenosine receptor A3 - exon 2 Chr1 403FGA AAGCGCAAAGTCATAGAAAAAG CTAAAGCCCTACTGCATGACCCT fibrinogen alpha polypeptide isoform alpha-E - intron 4 Chr4 735RBP3 ATGGCCAAGGTCCTCTTGGATAACTACTGCTT CGCAGGTCCATGATGAGGTGCTCCGTGTCCTGretinol-binding protein 3 precursor - exon 1 Chr10 1346NRAMP ACATGCAGGAAGTCATCGG CGAGGAAGAGGAGAAGAAGG natural resistance-associated macrophage protein Chr2RAG1 AAGACATCTTGGAAGGCATGA AAAGTTGCCATTCATCCTCA recombination activating gene 1 Chr11TTR TGCCTCGCTGGACTGGTATT GACAGCATCTAGAACTTTGACCAT thyroxine-binding prealbumin - intron 1 Chr18VWF Check Check von Willebrand Factor - intron 11 Chr12Dave please fill inHorvath et al. (2008) Genome Research