Use the ucsc genome browser? The chromosomal position is: chr11:57359802.
genome.ucsc.edu/cgi-bin/hgTracks?db=hg19&position=chr11%3A57359552-57360052&hgsid=449216747_3WEAMOYN6qGgBB5IeJ1kuWhkRAMM
Agree with researchers. You can use UCSC genome browser (http://genome.ucsc.edu/cgi-bin/hgGateway), ENSEMBL, or dbSNP or other tools. Please pay attention to the version of the genome build that you select to use at the front page of UCSC genome browser. dbSNP location is based on the most recent version of human genome in NCBI while UCSC browser gives you the choice to work with. Once in UCSC browser, after clicking on the specific SNP, you will be provided with a link to dbSNP.
In my study I found that best to find any SNP related information is Scandb
http://www.scandb.org/newinterface/index.html
Through yours answer (link), i am unable to find amino acid position & change. So, please tell me that how can i find the changed amino acid & position?
Dear Harishankar,
You can try to use the ENSEMBL database:
http://www.ensembl.org/info/website/tutorials/gene_snps.html
If you will search for rs2244169 in the human database you will see the following report:
http://www.ensembl.org/Homo_sapiens/Variation/Explore?db=core;r=11:57591829-57592829;v=rs2244169;vdb=variation;vf=102767954
here you can see that this variation is located in Intergenic space (Intergenic variant).
I hope this help to answer your questions/tasks
Best wishes,
Alexey
Hello Harishankar,
I checked your SNP at
http://www.scandb.org/newinterface/snpinfo.php
it locate on chr 11 -see results below. You will need look the results in MExcel -there are a full information that you can use for next your analyses steps/
rsnum chromosome position alleles gene feature left_gene right_gene
expression_gene_(population_and_p-value)
rs2244169 11 57116378 A/T NA
NA LOC390183 SERPING1 NA NA NA
Hello Dear,
Again i am not getting desired answer. So please tell me that does there any database to give the name & position of amino acid through reference SNP (rs2244169).
Example- rs11546660 gives the information that Valine changed to Alanine in 56th position.
In principle, any genome database provides an information on the phenotypic effect of SNP. In your case, rs2244169 is a non-coding SNP because it is located in intergenic space and therefore it does not accompany any amino acid change.
Thank you all.
Now i am getting satisfied with discussion & have got the exact answer.
Thank you once again.
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