Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Difficulty getting annotation for some UniRef100 IDs

    I'm using UniRef100 which I downloaded from here:
    ftp://ftp.ebi.ac.uk/pub/databases/un...ef100.fasta.gz

    I wanted extended annotation, so I got the flatfile here on the same day:
    ftp://ftp.ebi.ac.uk/pub/databases/un..._trembl.dat.gz

    When I search the FASTA file I get hits to entries like this one:

    UniRef100_Q6GZV6 Putative serine/threonine-protein kinase 019R n=1 Tax=Frog virus 3 (isolate Goorha) TaxID=654924 RepID=019R_FRG3G

    When I search 'Q6GZV6' in that uniprot_trembl.dat file, there are no hits to that accession. It's simply not there. I thought maybe I was looking up some needed ID mapping, so I found this:

    ftp://ftp.uniprot.org/pub/databases/...mapping.dat.gz

    Searching that I only found self-referential identifiers related to UniRef100, or other identifiers which also weren't in the DAT file:

    $ grep Q6GZV6 idmapping.dat
    Q6GZV6 UniProtKB-ID 019R_FRG3G
    Q6GZV6 Gene_ORFName FV3-019R
    Q6GZV6 UniRef100 UniRef100_Q6GZV6
    Q6GZV6 UniParc UPI00003B0FE5
    Q6GZV6 EMBL AY548484
    Q6GZV6 EMBL-CDS AAT09678.1
    Q6GZV6 GeneID 2947739

    Am I missing an authoritative file which map UniRef100 accessions to their annotations?

Latest Articles

Collapse

  • seqadmin
    Strategies for Sequencing Challenging Samples
    by seqadmin


    Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
    03-22-2024, 06:39 AM
  • seqadmin
    Techniques and Challenges in Conservation Genomics
    by seqadmin



    The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

    Avian Conservation
    Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
    03-08-2024, 10:41 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, Yesterday, 06:37 PM
0 responses
10 views
0 likes
Last Post seqadmin  
Started by seqadmin, Yesterday, 06:07 PM
0 responses
9 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-22-2024, 10:03 AM
0 responses
49 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-21-2024, 07:32 AM
0 responses
67 views
0 likes
Last Post seqadmin  
Working...
X