Hi Amaha, The easiest way to get the information you are looking for is to use the Table Browser (http://genome.ucsc.edu/cgi-bin/hgTables). First, select the hg16 assembly and "Variation and Repeats" group; the SNP track should be automatically selected. Next, input the coordinates for the LCT gene (chr2:136756184-136805519, according to UCSC Genes). Then, select "Selected fields from primary and related tables" as the output format, enter a output file name if desired, and click "get output". Finally, select the chrom, chromStart and name fields and click "get output".
I hope this information is helpful. Please feel free to contact the mail list again if you require further assistance. Best, Mary ------------------ Mary Goldman UCSC Bioinformatics Group ----- Original Message ----- From: "amaha segid" <[email protected]> To: [email protected] Sent: Monday, October 4, 2010 6:28:59 PM GMT -08:00 US/Canada Pacific Subject: [Genome] hg16 for SNPs in LCT gene Hi all, I am trying to make a file with a snp id in one column and hg16 (NCBI B34) in second column as in below, except the one below is based on NCBI B36 (hg18). I want the hg16 for SNPs in the LCT gene. can anyone please tell me the steps and tools that I need to do this. – rs1042712: 136262314 – rs2278544: 136262580 – rs4954633: 136263105 – rs3213890: 136268658 – rs1011361: 136270109 _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
