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United States Department of Agriculture

Agricultural Research Service

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DGIL Porcine Translational Research Database




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Current Statistics (10/12/2016)      
Gene entries              11,951
Genes with full-length RNA transcripts (full 5’ and 3’)        8,311
  % of genome (estimated)     36.9%
Full-length protein sequences        7,436
  % of genome (estimated)     39.2%
  MicroRNA Sequences         1,045
Errors              7,429
Error notations (# of entries)          5,070
  Artifactually duplicated genes        1,307
  Missing genes (from Ensembl 10.2)       1,272
  Truncated proteins           2,075
  Elongated proteins           156
Real-time PCR Assays          2,777
  Taqman             2,228
  SYBR Green               549
Antibodies (reactive and non reactive)    1,307
Antibodies (# entries)          595




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.



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: 10/14/2016
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