Detailed information of FUN_015839-T2 in Siderastrea siderea

Genomic Location: contig_13:1578240...1601242
NR annotation: no NCBI-NR hit recorded
Species Siderastrea siderea · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 Gene family
Family typeMembership / link
Ubiquitin familyE3|E3 activity|RBR · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01485
all species →		IBRIBR domain, a half RING-finger domainDomainInterproscan
PF17978
all species →		zf-RING_14RING/Ubox like zinc-binding domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR031127
all species →		FamilyE3 ubiquitin ligase RBR familyInterproscan
IPR002867
all species →		DomainIBR domainInterproscan
IPR003977
all species →		FamilyE3 ubiquitin-protein ligase parkinInterproscan
IPR044066
all species →		DomainTRIAD supradomainInterproscan
IPR013083
all species →		Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan
IPR041170
all species →		DomainRING/Ubox-like zinc-binding domainInterproscan
IPR047534
all species →		DomainE3 ubiquitin-protein ligase parkin, BRcat domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11685
all species →		RBR FAMILY RING FINGER AND IBR DOMAIN-CONTAININGInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000151
all species →		Cellular Componentubiquitin ligase complexInterproscan
GO:0000209
all species →		Biological Processprotein polyubiquitinationInterproscan
GO:0004842
all species →		Molecular Functionubiquitin-protein transferase activityInterproscan
GO:0005737
all species →		Cellular ComponentcytoplasmInterproscan
GO:0005783
all species →		Cellular Componentendoplasmic reticulumInterproscan
GO:0005794
all species →		Cellular ComponentGolgi apparatusInterproscan
GO:0005829
all species →		Cellular ComponentcytosolInterproscan
GO:0006511
all species →		Biological Processubiquitin-dependent protein catabolic processInterproscan
GO:0016567
all species →		Biological Processprotein ubiquitinationInterproscan
GO:0031624
all species →		Molecular Functionubiquitin conjugating enzyme bindingInterproscan
GO:0032436
all species →		Biological Processpositive regulation of proteasomal ubiquitin-dependent protein catabolic processInterproscan
GO:0061630
all species →		Molecular Functionubiquitin protein ligase activityInterproscan
GO:0008270
all species →		Molecular Functionzinc ion bindingInterproscan
GO:0005739
all species →		Cellular ComponentmitochondrionInterproscan

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
No KEGG orthology assignment for FUN_015839-T2.

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_015839-T2 across 85 RNA-seq samples of Siderastrea siderea. 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.

85Samples
0TPM > 0
7Conditions
0.0Max TPM
0.0Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
holobiont · low.pH_high.temp 20 0 0.00 0.00
holobiont · low.pH Control.temp 20 0 0.00 0.00
holobiont · control.pH_high.temp 20 0 0.00 0.00
holobiont · control.pH Control.temp 19 0 0.00 0.00
Whole organism 4 0 0.00 0.00
unannotated 1 0 0.00 0.00
live coral tissue/skeleton 1 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 (SSIDE_TPM, StringTie quantification over 85 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.

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