Detailed information of evm.model.Ap4.4394 in Astrangia poculata

Genomic Location: Ap4:31362578...31371746
NR annotation: CAB3997557.1, E3 ubiquitin- ligase pub2 [Paramuricea clavata]
Species Astrangia poculata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
No Swiss-Prot hit above the reporting threshold for this gene.
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0001565 (this species only)
Ubiquitin familyE3|E3 activity|HECT · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00632
all species →		HECTHECT-domain (ubiquitin-transferase)DomainInterproscan
PF02845
all species →		CUECUE domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000569
all species →		DomainHECT domainInterproscan
IPR003892
all species →		DomainUbiquitin system component CUEInterproscan
IPR035983
all species →		Homologous_superfamilyHECT, E3 ligase catalytic domainInterproscan

 PANTHER
No PANTHER signature was detected for evm.model.Ap4.4394. This gene does have a gene model — the search simply returned no hit.
 Gene Ontology
GO termCategoryDescriptionSource
GO:0004842
all species →		Molecular Functionubiquitin-protein transferase activityInterproscan
GO:0043130
all species →		Molecular Functionubiquitin bindingInterproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.
 KEGG pathway
KOEnzymeEnzyme IDPathwayMap IDSource
K22371G2H3; G2/M phase-specific E3 ubiquitin-protein ligaseEC:2.3.2.26
Ubiquitin systemko04121deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of evm.model.Ap4.4394 across 49 RNA-seq samples of Astrangia poculata. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

49Samples
0TPM > 0
4Conditions
0.0Max TPM
0.0Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
whole organism · cold control 14 0 0.00 0.00
whole organism · heat control 12 0 0.00 0.00
whole organism · cold challenge 12 0 0.00 0.00
whole organism · heat challenge 11 0 0.00 0.00

Per sample · hover a bar for the full sample record · show / hide the sample table

Source: CnidoSite RNA-seq expression matrices (APOCU_TPM, StringTie quantification over 49 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.

TOP