Hi all,
I have a question. I have some significant SNPs (Chr, SNP ID, and position) associated with birth weight in cattle. I am interested in translating these findings to human biology by identifying the corresponding orthologous genome position in humans.
I searched the BLAT/BLAST option of Ensemble, but I could not find my answer.
I would be happy if you could help me through this. Thanks
How many of these do you have? e.g. https://www.ncbi.nlm.nih.gov/gene/507069/ if you check the orthologs link you can find orthologs in many species (including cattle) here: https://www.ncbi.nlm.nih.gov/gene/675/ortholog/?scope=7742
Option 2:
Bovine genome database lets you look up homologs
Thanks for your answer and sharing your knowledge. i have around 80 SNPs on chromosomes that are different choromosomes. I would like to know, for example, which human chromosome corresponds to chr 4 on cattle. The links you put are for orthoulogus genes.
Do you have any suggestion?
This would be tricky. You could use UCSC genome browser for Bos taurus genome and look for the human chain/net alignments track. Here is an example of cattle genome showing alignments to human genome (in red color).
Different parts of human chromosomes may be similar to a particular region of cattle. Example from chr4 of cattle: https://genome.ucsc.edu/cgi-bin/hgTracks?db=bosTau9&lastVirtModeType=default&lastVirtModeExtraState=&virtModeType=default&virtMode=0&nonVirtPosition=&position=chr4%3A49950001%2D50050000&hgsid=2342604076_Am6KkO3CliCr4A97GAPMFI1l53Ut
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