Data Sources and their Data Sets

CATHGENE3D
CDD
GO
null
GO
HAMAP
InterMine post-processor
Gene-flanking regions created by the core InterMine post-processor
InterMine gene-flanking regions
Intergenic regions created by the InterMine core post-processor
InterMine intergenic regions
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
Aeschynomene evenia organism and strain information.
description_Aeschynomene_evenia.yml
Aeschynomene evenia organism and strain information.
strains_Aeschynomene_evenia.yml
CDS models for the aesev.CIAT22838.gnm1 genome
aesev.CIAT22838.gnm1.ann0.ZM3R.cds_primaryTranscript.fna
Gene family assignments for aesev.CIAT22838.gnm1 genes and proteins
aesev.CIAT22838.gnm1.ann0.ZM3R.legfed_v1_0.M65K.gfa.tsv
Gene model annotation for the aesev.CIAT22838.gnm1 genome
aesev.CIAT22838.gnm1.ann0.ZM3R.gene_models_main.gff3
InterPro scan results for aesev.CIAT22838.gnm1.
aesev.CIAT22838.gnm1.ann0.ZM3R.iprscan.gff3
LIS datastore genomic FASTA file for Aeschynomene evenia CIAT22838 gnm1
aesev.CIAT22838.gnm1.XF73.genome_main.fna
LIS gene families
legume.genefam.fam1.M65K.info_annot_ahrd.tsv
LIS gene family phylogenetic tree files
/data/LIS/Gene_families/legume.genefam.fam1.M65K/legume.genefam.fam1.M65K.trees_ML_rooted
Plant Reactome pathways for aesev.CIAT22838.gnm1 genes interpreted from gene family membership with Arachis duranensis and ipaensis genes
aesev.CIAT22838.gnm1.ann0.ZM3R.legfed_v1_0.M65K.pathway.tsv
Protein models for the aesev.CIAT22838.gnm1 genome
aesev.CIAT22838.gnm1.ann0.ZM3R.protein_primaryTranscript.faa
mRNA models for the aesev.CIAT22838.gnm1 genome
aesev.CIAT22838.gnm1.ann0.ZM3R.transcript_primaryTranscript.fna
PANTHER
PFAM
PIRSF
PRINTS
PROFILE
PROSITE
Plant Ontology
null
Plant Ontology
Plant Trait Ontology
null
Plant Trait Ontology
SFLD
SMART
SSF
Sequence Ontology
null
Sequence Ontology
TIGRFAMs
USDA
Legume Federation
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