The source of gene annotations in FAANGMine are NCBI (RefSeq) and Ensembl.
Query for genes:
Quick Search
Search FAANGMine. Enter names, identifiers or keywords for genes, proteins, ontology terms, authors, etc. (e.g. RCAN1, COX2, NM_001040473.2, NP_001076063.1, 282087, ENSFCAG00000031270, rs385910977, IL13)
Quick List
Enter a list of identifiers.
First Time Here?
FAANGMine v1.1 (release updates) integrates reference genome assemblies of bovine, goat, horse, pig, sheep, chicken, cat, dog and water buffalo with many other biological data sets. See the Data Source page for assembly versions. Model organism data (human, mouse, rat) allow well-curated data sets to be applied using orthology.
Please contact us if you would like any additional template queries or if you have a concern about a query not completing.
Genes |
Proteins |
Function |
Homology |
Interactions |
Variation |
Entire Gene Set |
Alias and DBXref |
Most protein information is from UniProt and InterPro. NCBI (RefSeq) and Ensembl protein ids and sequences are also available.
Query for proteins:
Gene Ontology annotation is from UniProt. Pathway datasets are from KEGG and Reactome.
Query for function:
Homologue datasets include TreeFam, Ensembl Compara and OrthoDB.
Query for homology:
Interaction datasets include BioGrid and IntAct.
Query for interactions:
Variation data includes variant and variant effects from Ensembl (all species except pig and water buffalo) and QTL from AnimalQTLdb (bovine, pig, sheep, chicken).
Query for variation:
These template queries allow retrieval of an entire dataset for a specified organism or gene set.
Query for entire gene set:
- Gene Source and Organism
Gene IDs - Organism All proteins
- Organism Transcripts + Genes + Database Cross Reference IDs
- Gene Source and Organism Genes and Chromosomal location
- Genome Assembly Chromosome IDs and Lengths
- Gene Source and Organism Genes and Database Cross Reference IDs
- Organism Proteins (UniProt) and Publications.
- Organism Genes + mRNA + Protein
These template queries enable the retrieval of database cross references (DBxref) and alias. DBxref are provided for gene ids across different gene sets and assemblies. Aliases are provided for SNP ids.
Query for alias and dbxref:
This material is based upon work supported by the National Science Foundation under Award Number 0054449. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. FAANGMine is hosted at the University of Missouri.
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