help with finding start&and locations of gene list
Hi, I have list of genes' names and I would like to get their start&end locations from NCBI for example or any other relaibale website. for example: for gene X start location is 1 and end location is 15
how can I do this?
thanks!
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2 answers
use ensembl biomart https://www.ensembl.org/biomart/martview
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Using NCBI datasets/dataformat command line utilities (LINK):
$ datasets summary gene symbol tp53 --as-json-lines | dataformat tsv gene --fields symbol,gene-id,annotation-assembly-name,chromosomes,annotation-genomic-range-range-start,annotation-genomic-range-range-stop
Symbol NCBI GeneID Annotation Assembly Name Chromosomes Annotation Genomic Range Start Annotation Genomic Range Stop
TP53 7157 GRCh38.p14 17 7668421 7687490
TP53 7157 T2T-CHM13v2.0 17 7572544 7591594
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