Page Banner

United States Department of Agriculture

Agricultural Research Service

Related Topics

DGIL Porcine Translational Research Database

PINdb

 

 

Click SEARCH or logo to enter into the database

 

Current Statistics (09/07/2016)  
               
Gene entries            11,650
               
Genes with full-length RNA transcripts (full 5’ and 3’)        8,076
  % of genome (estimated)   35.7%
               
Full-length protein sequences      7,269
  % of genome (estimated)   38.3%
               
  MicroRNA Sequences     1,045
               
Error notations (# of entries)      4,990
  Artifactually duplicated genes    1,278
  Missing genes (from Ensembl 10.2)   1,245
  Truncated proteins       2,001
  Elongated proteins       144
               
Real-time PCR Assays      2,782
  Taqman           2,249
  SYBR Green             533
               
Antibodies (reactive and non reactive)  1,263
Antibodies (# entries)        589

 

 

This database contains functional information on genes commonly studied in humans, pigs, and rodents, including more than 2,300 sequenced at DGIL. Each entry has been manually-annotated and is linked to other porcine databases as well as Homologene, InnateDb and Gene Ontology Annotations.

                                                                       

What's new?

 

1.   Assembly of the Mucin Superfamily.

 

The porcine Mucin Superfamily contains 20 members (17 full length and 3 partial length assemblies) including 7 that are missing from Ensembl build 10.2.

 

2.   Assembly of the Collagen Superfamily.

 

The porcine Collagen Superfamily contains 49 members including 3 that are missing from Ensembl build 10.2.

 

3. Complete representation of the "Transportome" (Solute Carrier and the ATP binding Cassette Superfamilies).

 

The porcine Solute Carrier Superfamily contains 398 members, including 42 that are missing from Ensembl build 10.2. About 25% of these transporters are dedicated to amino acid and vitamin transport. Several species specific gene expansion occurs in subfamilies. The porcine ATP binding Cassette Subfamily contains 57 members including 4 that are missing from Ensembl build 10.2. 

 

4. Annotation of 356 genes that compose porcine CD markers to conform to human HLDA 10.

 

5. Resolution of the Tetraspanin (32 porcine members) and Protocadherin beta Superfamilies (12 porcine members)

 

The sequences in this database (and associated informantics) 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.

Updated

07/22/2016


Last Modified: 9/9/2016
Footer Content Back to Top of Page