Thank you Malachi, this is what I am looking for :)
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Hi to all,
Where can I download all exons of the human genome in FASTA format (one big file!)?
Thanks
Using Ensembl BioMART
The download took a while but eventually I got a file 'mart_export.txt.gz'. This file has output that looks like this
>ENSG00000264715|ENST00000578347|ENSE00002715610
AGGAGTGACCAGAAGACAAGAGTGCGAGCCTTCTGTTATGCCCAGACAGGGCCACCAGAGGGCTCCTTGGTCTAGTGGTAACGCCA
>ENSG00000265161|ENST00000580394|ENSE00002716056
AGTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCATCCACC
>ENSG00000200917|ENST00000364047|ENSE00001438810
GCACATACATATACTAAAATTGGAACAATACAGAGAAGATTAGCATAGCCCCTGCGCAAGGATGACATGCAAATTCGTGAAGTGTTCCATATTAAA
...
Thank you Malachi, this is what I am looking for :)
get the coordinates:
Exon coordinates of hg19 genome download
and fetch the sequences:
Have a look at the UCSC Table Browser: position base query
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Thank you very much to all. Thank you Malachi, this is what I am looking for.
Not an answer... This should go as a comment. Thanks!
Here - ftp://ftp.ebi.ac.uk/pub/databases/astd/current_release/human/