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
CDS models for the lupal.Amiga.gnm1 genome
lupal.Amiga.gnm1.ann0.3GKS.cds.fna
LINK
CDS models for the lupan.Tanjil.gnm1 genome
lupan.Tanjil.gnm1.ann1.nnV9.cds_all.fna
LINK
Gene family assignments for Lupinus albus Amiga genes and proteins.
lupal.Amiga.gnm1.ann0.3GKS.legfed_v1_0.M65K.gfa.tsv
LINK
Gene family assignments for Lupinus angustifolius Tanjil genes and proteins.
lupan.Tanjil.gnm1.ann1.nnV9.legfed_v1_0.M65K.gfa.tsv
LINK
Gene model annotation for the lupal.Amiga.gnm1 genome
lupal.Amiga.gnm1.ann0.3GKS.gene_models_main.gff3
LINK
Gene model annotation for the lupan.Tanjil.gnm1 genome
lupan.Tanjil.gnm1.ann1.nnV9.gene_models_main.gff3
LINK
LIS datastore genomic FASTA file for Lupinus albus Amiga
lupal.Amiga.gnm1.F4NR.genome_main.fna
LINK
LIS datastore genomic FASTA file for Lupinus angustifolius Tanjil
lupan.Tanjil.gnm1.Qq0N.genome_main.fna
LINK
LIS gene families
legume.genefam.fam1.M65K.info_annot_ahrd.tsv
LINK
Lupinus albus organism and strain information.
description_Lupinus_albus.yml
LINK
Lupinus albus organism and strain information.
strains_Lupinus_albus.yml
LINK
Lupinus angustifolius organism and strain information.
description_Lupinus_angustifolius.yml
LINK
Lupinus angustifolius organism and strain information.
strains_Lupinus_angustifolius.yml
LINK
Plant Reactome pathway assignments for Lupinus albus Amiga genes via gene family membership with Lupinus angustifolius genes.
lupal.Amiga.gnm1.ann0.3GKS.legfed_v1_0.M65K.pathway.tsv
LINK
Plant Reactome pathway assignments for Lupinus angustifolius Tanjil genes.
lupan.Tanjil.gnm1.ann1.nnV9.pathway.tsv
LINK
Protein models for the lupal.Amiga.gnm1 genome
lupal.Amiga.gnm1.ann0.3GKS.protein.faa
LINK
Protein models for the lupan.Tanjil.gnm1 genome
lupan.Tanjil.gnm1.ann1.nnV9.protein.faa
LINK
Synteny between Lupinus angustifolius Tanjil.gnm1 and other species.
lupan.Tanjil.gnm1.ann1.x.aradu.V14167.gnm1.ann1.gff
LINK
Synteny between Lupinus angustifolius Tanjil.gnm1 and other species.
lupan.Tanjil.gnm1.ann1.x.araip.K30076.gnm1.ann1.gff
LINK
Synteny between Lupinus angustifolius Tanjil.gnm1 and other species.
lupan.Tanjil.gnm1.ann1.x.glyma.Wm82.gnm2.ann1.gff
LINK
Synteny between Lupinus angustifolius Tanjil.gnm1 and other species.
lupan.Tanjil.gnm1.ann1.x.lotja.MG20.gnm3.ann1.gff
LINK
Synteny between Lupinus angustifolius Tanjil.gnm1 and other species.
lupan.Tanjil.gnm1.ann1.x.lupan.Tanjil.gnm1.ann1.gff
LINK
Synteny between Lupinus angustifolius Tanjil.gnm1 and other species.
lupan.Tanjil.gnm1.ann1.x.medtr.A17_HM341.gnm4.ann2.gff
LINK
Synteny between Lupinus angustifolius Tanjil.gnm1 and other species.
lupan.Tanjil.gnm1.ann1.x.phavu.G19833.gnm1.ann1.gff
LINK
mRNA models for the lupal.Amiga.gnm1 genome
lupal.Amiga.gnm1.ann0.3GKS.mRNA.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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