Data Sources and their Data Sets

CATHGENE3D
CDD
GO
The Gene Ontology (GO) knowledgebase is the world's largest source of information on the functions of genes. This knowledge is both human-readable and machine-readable, and is a foundation for computational analysis of large-scale molecular biology and genetics experiments in biomedical research.
GO
LINK
HAMAP
InterMine post-processor
Gene-flanking regions created by the core InterMine post-processor
InterMine gene-flanking regions
LINK
Intergenic regions created by the InterMine core post-processor
InterMine intergenic regions
LINK
InterPro
InterPro provides functional analysis of proteins by classifying them into families and predicting domains and important sites.
InterPro data set
Mapping of GO terms to InterPro entries.
InterPro domain GO annotations
LIS Datastore
Arachis duranensis organism and strain information.
description_Arachis_duranensis.yml
LINK
Arachis duranensis organism and strain information.
strains_Arachis_duranensis.yml
LINK
Arachis hypogaea organism and strain information.
description_Arachis_hypogaea.yml
LINK
Arachis hypogaea organism and strain information.
strains_Arachis_hypogaea.yml
LINK
Arachis ipaensis organism and strain information.
description_Arachis_ipaensis.yml
LINK
Arachis ipaensis organism and strain information.
strains_Arachis_ipaensis.yml
LINK
CDS models for the aradu.V14167.gnm1 genome
aradu.V14167.gnm1.ann1.cxSM.cds.fna
LINK
CDS models for the arahy.Tifrunner.gnm1 genome
arahy.Tifrunner.gnm1.ann1.CCJH.cds_primaryTranscript.fna
LINK
CDS models for the arahy.Tifrunner.gnm2 genome
arahy.Tifrunner.gnm2.ann1.4K0L.cds_primaryTranscript.fna
LINK
CDS models for the araip.K30076.gnm1 genome
araip.K30076.gnm1.ann1.J37m.cds.fna
LINK
Gene family assignments for Arachis duranensis V14167 genes and proteins.
aradu.V14167.gnm1.ann1.cxSM.legfed_v1_0.M65K.gfa.tsv
LINK
Gene family assignments for Arachis hypogaea Tifrunner gnm1 genes and proteins.
arahy.Tifrunner.gnm1.ann1.CCJH.legfed_v1_0.M65K.gfa.tsv
LINK
Gene family assignments for Arachis hypogaea Tifrunner gnm2 genes and proteins.
arahy.Tifrunner.gnm2.ann1.4K0L.legfed_v1_0.M65K.gfa.tsv
LINK
Gene family assignments for Arachis ipaensis K30076 genes and proteins.
araip.K30076.gnm1.ann1.J37m.legfed_v1_0.M65K.gfa.tsv
LINK
Gene model annotation for the aradu.V14167.gnm1 genome
aradu.V14167.gnm1.ann1.cxSM.gene_models_main.gff3
LINK
Gene model annotation for the arahy.Tifrunner.gnm1 genome
arahy.Tifrunner.gnm1.ann1.CCJH.gene_models_main.gff3
LINK
Gene model annotation for the arahy.Tifrunner.gnm2 genome
arahy.Tifrunner.gnm2.ann1.4K0L.gene_models_main.gff3
LINK
Gene model annotation for the araip.K30076.gnm1 genome
araip.K30076.gnm1.ann1.J37m.gene_models_main.gff3
LINK
LIS datastore genomic FASTA file for Arachis duranensis V14167
aradu.V14167.gnm1.SWBf.genome_main.fna
LINK
LIS datastore genomic FASTA file for Arachis hypogaea Tifrunner
arahy.Tifrunner.gnm1.KYV3.genome_main.fna
LINK
LIS datastore genomic FASTA file for Arachis hypogaea Tifrunner
arahy.Tifrunner.gnm2.J5K5.genome_main.fna
LINK
LIS datastore genomic FASTA file for Arachis ipaensis K30076
araip.K30076.gnm1.bXJ8.genome_main.fna
LINK
LIS gene families
legume.genefam.fam1.M65K.info_annot_ahrd.tsv
LINK
MRNA models for the araip.K30076.gnm1 genome
araip.K30076.gnm1.ann1.J37m.transcript.fna
LINK
Plant Reactome pathways for aradu.V14167.gnm1
aradu.V14167.gnm1.ann1.cxSM.pathway.tsv
LINK
Plant Reactome pathways for arahy.Tifrunner.gnm1
arahy.Tifrunner.gnm1.ann1.CCJH.legfed_v1_0.M65K.pathway.tsv
LINK
Plant Reactome pathways for arahy.Tifrunner.gnm2
arahy.Tifrunner.gnm2.ann1.4K0L.legfed_v1_0.M65K.pathway.tsv
LINK
Plant Reactome pathways for araip.K30076.gnm1
araip.K30076.gnm1.ann1.J37m.pathway.tsv
LINK
Protein models for the aradu.V14167.gnm1 genome
aradu.V14167.gnm1.ann1.cxSM.protein.faa
LINK
Protein models for the arahy.Tifrunner.gnm1 genome
arahy.Tifrunner.gnm1.ann1.CCJH.protein_primaryTranscript.faa
LINK
Protein models for the arahy.Tifrunner.gnm2 genome
arahy.Tifrunner.gnm2.ann1.4K0L.protein_primaryTranscript.faa
LINK
Protein models for the araip.K30076.gnm1 genome
araip.K30076.gnm1.ann1.J37m.protein.faa
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.aradu.V14167.gnm1.ann1.gff
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.araip.K30076.gnm1.ann1.gff
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.glyma.Wm82.gnm2.ann1.gff
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.lupan.Tanjil.gnm1.ann1.gff
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.medtr.A17_HM341.gnm4.ann2.gff
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.phavu.G19833.gnm1.ann1.gff
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.phavu.G19833.gnm2.ann1.gff
LINK
Synteny between aradu.V14167.gnm1 and other species.
aradu.V14167.gnm1.ann1.x.vigra.VC1973A.gnm6.ann1.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.aradu.V14167.gnm1.ann1.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.araip.K30076.gnm1.ann1.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.glyma.Wm82.gnm2.ann1.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.lupan.Tanjil.gnm1.ann1.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.medtr.A17_HM341.gnm4.ann2.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.phavu.G19833.gnm1.ann1.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.phavu.G19833.gnm2.ann1.gff
LINK
Synteny between araip.K30076.gnm1 and other species.
araip.K30076.gnm1.ann1.x.vigra.VC1973A.gnm6.ann1.gff
LINK
mRNA models for the aradu.V14167.gnm1 genome
aradu.V14167.gnm1.ann1.cxSM.transcript.fna
LINK
mRNA models for the arahy.Tifrunner.gnm1 genome
arahy.Tifrunner.gnm1.ann1.CCJH.transcript_primaryTranscript.fna
LINK
mRNA models for the arahy.Tifrunner.gnm2 genome
arahy.Tifrunner.gnm2.ann1.4K0L.transcript_primaryTranscript.fna
LINK
PANTHER
PFAM
PIRSF
PRINTS
PROFILE
PROSITE
Plant Ontology
The Plant Ontology (PO) is a community resource consisting of standardized terms, definitions, and logical relations describing plant structures and development stages, augmented by a large database of annotations from genomic and phenomic studies.
Plant Ontology
LINK
Plant Trait Ontology
A controlled vocabulary of describe phenotypic traits in plants.
Plant Trait Ontology
LINK
SFLD
SMART
SSF
Sequence Ontology
The Sequence Ontology is a set of terms and relationships used to describe the features and attributes of biological sequence.
Sequence Ontology
LINK
TIGRFAMs
USDA
Legume Federation
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The Legume Information System (LIS) is a research project of the USDA-ARS:Corn Insects and Crop Genetics Research in Ames, IA.
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