Table of transcript variant 1

[desmo]

Hi all,
I really hope that someone could help me.
I would like to have a table that reports the information about the all the transcripts with the additional information of the number of the transcript variant (unfortunatelly refSeqGenes doesn't report this info).
Just to give you an example I would like something like that

A1CF NM_001198819.1 transcript variant 5
A1CF NM_014576.3 transcript variant 1
A1CF NM_138932.2 transcript variant 2
A1CF NM_138933.2 transcript variant 3
A1CF NM_001198818.1 transcript variant 4
A1CF NM_001198820.1 transcript variant 6

as it is reported in NCBI.
Any suggestion?
Really thanks in advance

[rbagnall]

Hi desmo,

Download the following refseq file (~40Mb)

ftp://ftp.ncbi.nlm.nih.gov/refseq/H_...man.rna.fna.gz

unzip and use UNIX grep for the pattern A1CF

grep "A1CF" human.rna.fna

output

>gi|311771756|ref|NM_014576.3| Homo sapiens APOBEC1 complementation factor (A1CF), transcript variant 1, mRNA
>gi|311771757|ref|NM_138932.2| Homo sapiens APOBEC1 complementation factor (A1CF), transcript variant 2, mRNA
>gi|311771758|ref|NM_138933.2| Homo sapiens APOBEC1 complementation factor (A1CF), transcript variant 3, mRNA
>gi|311771763|ref|NM_001198818.1| Homo sapiens APOBEC1 complementation factor (A1CF), transcript variant 4, mRNA
>gi|311771765|ref|NM_001198819.1| Homo sapiens APOBEC1 complementation factor (A1CF), transcript variant 5, mRNA
>gi|311771767|ref|NM_001198820.1| Homo sapiens APOBEC1 complementation factor (A1CF), transcript variant 6, mRNA

To retrieve all IDs

grep "^>" human.rna.fna

[desmo]

Really thanks rbagnall.
It worked great.
Thanks again