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DGIL Porcine Translational Research Database

PINdb

 

 

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As of April 2021, the database has been online for 16 years. It is used by research scientists working with pigs worldwide as well as commercial and public developers of new reagents. This database is the largest manually curated database for any agriculture species and is unique among porcine gene databases by linking gene expression to gene function, identification of related gene pathways, and connectivity with other porcine/human gene databases. It is referenced in more than 100 manuscripts or websites and used as an information resource for several reagent vendors.

 

Current Statistics (04/22/21)  
   
Gene Entries    20,555
   
Genes with full-length RNA transcripts (full 5’ and 3’)        13,074
  % of genome (estimated)   
   
Number of transcripts 14543
    Splice variants 1469
   
Number of full-length protein sequences    10,085
  % of genome (estimated)  50.1%
   
  MicroRNA Sequences 1,045
   
Biologically duplicated genes/paralogs 519
   
   
Real-time PCR Assays   3,349
  Taqman   2,271
  SYBR Green     1078
   
Antibodies (reactive and non reactive)   2,150
Antibodies (# entries)    886

 

Error Analysis      
       
Ensembl Build 11.1 Number   Percent
       
Correct 3346   40.95%
Error in annotated Ensembl locus 4222   51.67%
Not an annotated gene 586   7.17%
Sequence is not present 17   0.21%
       
Loci screened 8171    
       
       
MARC Build 1.0 Number   Percent
       
Correct 1612   40.30%
Error in annotated MARC locus 2008   50.20%
Not an annotated gene 210   5.25%
Sequence is not present 170   4.25%
       
Loci screened 4000    

 

The sequences in this database (and associated informatics) are available (in bulk) to extramural laboratories, via MTA, that are looking to supplement their analysis of the porcine genome. Please contact us if you are interested in this.

Disclaimer

This database is currently in a beta version, there are some incomplete annotations. We cannot guarantee the performance of the antibodies or PCR assays that have not been tested in our lab under conditions not specified in the published literature.


Last Modified: 04/21/2021).