Gene duplication analysis in plants

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3.5 years ago

umeshtanwar2 ▴ 30

Hi all

I am working on Barley (Hordeum vulgare) plant. I have a list of five genes of my interest with EnsemblPlants IDs, eg. HORVU2Hr1G086140. I would like to locate these genes on chromosomes. I have tried the 'Add Features' with IDs on EnsemblPlants but could not get the gene location on chromosomes. Also I would like to detect the duplication of my genes in barley genome. Please help me in this analysis.

Thanks

gene duplication genome • 1.0k views

ADD COMMENT • link 3.5 years ago by umeshtanwar2 ▴ 30

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Not sure how you are doing it but in EnsemblPlants I just pasted the ID HORVU2Hr1G086140 in the search box at the top right hand corner and the search returned the chromosome location "Chromosome chr2H: 621,114,389-621,117,467 reverse strand".

I hope this helps.

ADD REPLY • link 3.5 years ago by PKW ▴ 110

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For further details under the biomart tab you can select the database and dateset of interest then click on filter and paste the five ids in the gene stable id box under GENE ASSOCIATED VARIANT FILTERS then choose the attributes that you want then click on the results icon to get some out put like this.

ADD REPLY • link 3.5 years ago by PKW ▴ 110

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Thank you for the reply. I am able to see this information. I would like to get an image like this: enter image description here

ADD REPLY • link 3.5 years ago by umeshtanwar2 ▴ 30

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