Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • desmo
    replied
    Really thanks rbagnall.
    It worked great.
    Thanks again

    Leave a comment:


  • rbagnall
    replied
    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

    Code:
    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

    Code:
    grep "^>" human.rna.fna

    Leave a comment:


  • desmo
    started a topic Table of transcript variant 1

    Table of transcript variant 1

    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

Latest Articles

Collapse

  • seqadmin
    Multiomics Techniques Advancing Disease Research
    by seqadmin


    New and advanced multiomics tools and technologies have opened new avenues of research and markedly enhanced various disciplines such as disease research and precision medicine1. The practice of merging diverse data from various ‘omes increasingly provides a more holistic understanding of biological systems. As Maddison Masaeli, Co-Founder and CEO at Deepcell, aptly noted, “You can't explain biology in its complex form with one modality.”

    A major leap in the field has
    ...
    02-08-2024, 06:33 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 02-23-2024, 04:11 PM
1 response
22 views
0 likes
Last Post kim897
by kim897
 
Started by seqadmin, 02-21-2024, 08:52 AM
0 responses
40 views
0 likes
Last Post seqadmin  
Started by seqadmin, 02-20-2024, 08:57 AM
0 responses
28 views
0 likes
Last Post seqadmin  
Started by seqadmin, 02-14-2024, 09:19 AM
0 responses
59 views
0 likes
Last Post seqadmin  
Working...
X