Question: How to download reference transcriptome file of species ?
2
gravatar for jack
6.0 years ago by
jack810
Germany
jack810 wrote:

Hi,

 

I'm looking for database to download reference transcriptome of different species . Does someone have  a recommendation?

rna-seq assembly genome • 4.3k views
ADD COMMENTlink modified 11 months ago by ashmc0 • written 6.0 years ago by jack810
4
gravatar for David Fredman
6.0 years ago by
David Fredman1.0k
University of Bergen, Norway
David Fredman1.0k wrote:

Duplicate of Looking for database to download transcriptom annotation file ?

You can get reference gene annotation from NCBI, Ensembl, UCSC, and iGenome amongst others.

ADD COMMENTlink written 6.0 years ago by David Fredman1.0k
0
gravatar for Pitágoras Alves
22 months ago by
Brazil, Natal, UFRN
Pitágoras Alves0 wrote:

You can use the NCBI web interface. Search for sequences of the species you want and add "biomol_rna[PROP]" to the filters. In the top-right corner above the results click on: Send To > File > Format: Fasta (or other format like GFF) > Create File.

ADD COMMENTlink written 22 months ago by Pitágoras Alves0
0
gravatar for ashmc
11 months ago by
ashmc0
ashmc0 wrote:

I would recommend going to NCBI and using their reference transcriptome - https://www.ncbi.nlm.nih.gov/genome/?term=drosophila%20melanogaster%20transcriptome

ADD COMMENTlink written 11 months ago by ashmc0
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