Class: GenePfamFamilies
URI: img_core_v400:GenePfamFamilies
classDiagram
class GenePfamFamilies
click GenePfamFamilies href "../GenePfamFamilies/"
GenePfamFamilies : align_length
GenePfamFamilies : bit_score
GenePfamFamilies : evalue
GenePfamFamilies : gene_oid
GenePfamFamilies : percent_identity
GenePfamFamilies : pfam_family
GenePfamFamilies : query_end
GenePfamFamilies : query_start
GenePfamFamilies : scaffold
GenePfamFamilies : subj_end
GenePfamFamilies : subj_start
GenePfamFamilies : taxon
Slots
| Name | Cardinality and Range | Description | Inheritance |
|---|---|---|---|
| gene_oid | 0..1 Integer |
direct | |
| pfam_family | 0..1 String |
direct | |
| percent_identity | 0..1 Float |
direct | |
| query_start | 0..1 Integer |
direct | |
| query_end | 0..1 Integer |
direct | |
| subj_start | 0..1 Integer |
direct | |
| subj_end | 0..1 Integer |
direct | |
| evalue | 0..1 Float |
direct | |
| bit_score | 0..1 Float |
direct | |
| align_length | 0..1 Integer |
direct | |
| taxon | 0..1 Integer |
direct | |
| scaffold | 0..1 Integer |
direct |
Identifier and Mapping Information
Schema Source
- from schema: https://w3id.org/jgi/img_core_v400
Mappings
| Mapping Type | Mapped Value |
|---|---|
| self | img_core_v400:GenePfamFamilies |
| native | img_core_v400:GenePfamFamilies |
LinkML Source
Direct
name: gene_pfam_families
from_schema: https://w3id.org/jgi/img_core_v400
attributes:
gene_oid:
name: gene_oid
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- actino_abc_genes
- delete_genes
- dt_ht_hits
- dt_img_gene_prot_pep_sample
- dt_phylum_dist_genes
- dt_scog_genes
- gene
- gene_aliases
- gene_biocyc_rxns
- gene_cathfam
- gene_cog_groups
- gene_essential_genes
- gene_exceptions
- gene_ext_links
- gene_feature_tags
- gene_frag_coords
- gene_go_terms
- gene_img_interpro_hits
- gene_ko_enzymes
- gene_ko_enzymes_new
- gene_ko_terms
- gene_kog_groups
- gene_notes
- gene_paralogs
- gene_pdb_xrefs
- gene_pfam_families
- gene_sig_peptides
- gene_smart
- gene_superfam
- gene_tigrfams
- gene_xref_families
- kp_pseudo
- merfs_gene_mapping
- mv_gene_tmhmm_stats
- tmp_genes
range: integer
required: false
pfam_family:
name: pfam_family
from_schema: https://w3id.org/jgi/img_core_v400
rank: 1000
domain_of:
- gene_pfam_families
range: string
required: false
percent_identity:
name: percent_identity
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- dt_phylum_dist_genes
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
range: float
required: false
query_start:
name: query_start
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
range: integer
required: false
query_end:
name: query_end
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
range: integer
required: false
subj_start:
name: subj_start
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
range: integer
required: false
subj_end:
name: subj_end
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
range: integer
required: false
evalue:
name: evalue
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
range: float
required: false
bit_score:
name: bit_score
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- dt_phylum_dist_genes
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
range: float
required: false
align_length:
name: align_length
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_pfam_families
- gene_smart
- gene_superfam
range: integer
required: false
taxon:
name: taxon
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- cog_species
- dt_img_gene_prot_pep_sample
- dt_taxon_node_lite
- gene
- gene_biocyc_rxns
- gene_cathfam
- gene_cog_groups
- gene_img_interpro_hits
- gene_ko_enzymes
- gene_ko_enzymes_new
- gene_ko_terms
- gene_kog_groups
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
- gene_xref_families
- kp_pseudo
- merfs_gene_mapping
- paralog_group
- scaffold
- scaffold_stats
- taxon_node_lite
range: integer
required: false
scaffold:
name: scaffold
from_schema: https://w3id.org/jgi/img_core_v400
domain_of:
- gene
- gene_biocyc_rxns
- gene_cathfam
- gene_cog_groups
- gene_img_interpro_hits
- gene_ko_enzymes
- gene_ko_enzymes_new
- gene_ko_terms
- gene_kog_groups
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
- gene_xref_families
- iso_plasmids
- kp_pseudo
range: integer
required: false
Induced
name: gene_pfam_families
from_schema: https://w3id.org/jgi/img_core_v400
attributes:
gene_oid:
name: gene_oid
from_schema: https://w3id.org/jgi/img_core_v400
alias: gene_oid
owner: gene_pfam_families
domain_of:
- actino_abc_genes
- delete_genes
- dt_ht_hits
- dt_img_gene_prot_pep_sample
- dt_phylum_dist_genes
- dt_scog_genes
- gene
- gene_aliases
- gene_biocyc_rxns
- gene_cathfam
- gene_cog_groups
- gene_essential_genes
- gene_exceptions
- gene_ext_links
- gene_feature_tags
- gene_frag_coords
- gene_go_terms
- gene_img_interpro_hits
- gene_ko_enzymes
- gene_ko_enzymes_new
- gene_ko_terms
- gene_kog_groups
- gene_notes
- gene_paralogs
- gene_pdb_xrefs
- gene_pfam_families
- gene_sig_peptides
- gene_smart
- gene_superfam
- gene_tigrfams
- gene_xref_families
- kp_pseudo
- merfs_gene_mapping
- mv_gene_tmhmm_stats
- tmp_genes
range: integer
required: false
pfam_family:
name: pfam_family
from_schema: https://w3id.org/jgi/img_core_v400
rank: 1000
alias: pfam_family
owner: gene_pfam_families
domain_of:
- gene_pfam_families
range: string
required: false
percent_identity:
name: percent_identity
from_schema: https://w3id.org/jgi/img_core_v400
alias: percent_identity
owner: gene_pfam_families
domain_of:
- dt_phylum_dist_genes
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
range: float
required: false
query_start:
name: query_start
from_schema: https://w3id.org/jgi/img_core_v400
alias: query_start
owner: gene_pfam_families
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
range: integer
required: false
query_end:
name: query_end
from_schema: https://w3id.org/jgi/img_core_v400
alias: query_end
owner: gene_pfam_families
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
range: integer
required: false
subj_start:
name: subj_start
from_schema: https://w3id.org/jgi/img_core_v400
alias: subj_start
owner: gene_pfam_families
domain_of:
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
range: integer
required: false
subj_end:
name: subj_end
from_schema: https://w3id.org/jgi/img_core_v400
alias: subj_end
owner: gene_pfam_families
domain_of:
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
range: integer
required: false
evalue:
name: evalue
from_schema: https://w3id.org/jgi/img_core_v400
alias: evalue
owner: gene_pfam_families
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
range: float
required: false
bit_score:
name: bit_score
from_schema: https://w3id.org/jgi/img_core_v400
alias: bit_score
owner: gene_pfam_families
domain_of:
- dt_phylum_dist_genes
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_paralogs
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
range: float
required: false
align_length:
name: align_length
from_schema: https://w3id.org/jgi/img_core_v400
alias: align_length
owner: gene_pfam_families
domain_of:
- gene_cathfam
- gene_cog_groups
- gene_ko_terms
- gene_kog_groups
- gene_pfam_families
- gene_smart
- gene_superfam
range: integer
required: false
taxon:
name: taxon
from_schema: https://w3id.org/jgi/img_core_v400
alias: taxon
owner: gene_pfam_families
domain_of:
- cog_species
- dt_img_gene_prot_pep_sample
- dt_taxon_node_lite
- gene
- gene_biocyc_rxns
- gene_cathfam
- gene_cog_groups
- gene_img_interpro_hits
- gene_ko_enzymes
- gene_ko_enzymes_new
- gene_ko_terms
- gene_kog_groups
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
- gene_xref_families
- kp_pseudo
- merfs_gene_mapping
- paralog_group
- scaffold
- scaffold_stats
- taxon_node_lite
range: integer
required: false
scaffold:
name: scaffold
from_schema: https://w3id.org/jgi/img_core_v400
alias: scaffold
owner: gene_pfam_families
domain_of:
- gene
- gene_biocyc_rxns
- gene_cathfam
- gene_cog_groups
- gene_img_interpro_hits
- gene_ko_enzymes
- gene_ko_enzymes_new
- gene_ko_terms
- gene_kog_groups
- gene_pfam_families
- gene_smart
- gene_superfam
- gene_tigrfams
- gene_xref_families
- iso_plasmids
- kp_pseudo
range: integer
required: false