Detailed information of FUN_006769-T1 in Siderastrea siderea

Genomic Location: contig_5:4414668...4488165
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 familyUBD|Alpha-Helix|UBA · all ubiquitin genes in this species
Ubiquitin familyUBD|Alpha-Helix|UBM · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF06025
all species →		DUF913Domain of Unknown Function (DUF913)FamilyInterproscan
PF02825
all species →		WWEWWE domainFamilyInterproscan
PF14377
all species →		UBMUbiquitin binding regionMotifInterproscan
PF00632
all species →		HECTHECT-domain (ubiquitin-transferase)DomainInterproscan
PF00627
all species →		UBAUBA/TS-N domainDomainInterproscan
PF06012
all species →		DUF908Domain of Unknown Function (DUF908)FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR018123
all species →		DomainWWE domain, subgroupInterproscan
IPR000569
all species →		DomainHECT domainInterproscan
IPR015940
all species →		DomainUbiquitin-associated domainInterproscan
IPR037197
all species →		Homologous_superfamilyWWE domain superfamilyInterproscan
IPR016024
all species →		Homologous_superfamilyArmadillo-type foldInterproscan
IPR010314
all species →		DomainE3 ubiquitin ligase, domain of unknown function DUF913Interproscan
IPR004170
all species →		DomainWWE domainInterproscan
IPR025527
all species →		Conserved_siteHUWE1/REV1, ubiquitin-binding motifInterproscan
IPR041918
all species →		DomainHUWE1, UBA domainInterproscan
IPR035983
all species →		Homologous_superfamilyHECT, E3 ligase catalytic domainInterproscan
IPR010309
all species →		DomainE3 ubiquitin ligase, domain of unknown function DUF908Interproscan
IPR050409
all species →		FamilyE3 ubiquitin-protein ligaseInterproscan
IPR009060
all species →		Homologous_superfamilyUBA-like superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11254
all species →		HECT DOMAIN UBIQUITIN-PROTEIN LIGASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0008270
all species →		Molecular Functionzinc ion bindingInterproscan
GO:0004842
all species →		Molecular Functionubiquitin-protein transferase activityInterproscan
GO:0000209
all species →		Biological Processprotein polyubiquitinationInterproscan
GO:0005737
all species →		Cellular ComponentcytoplasmInterproscan
GO:0016567
all species →		Biological Processprotein ubiquitinationInterproscan
GO:0061630
all species →		Molecular Functionubiquitin protein ligase activityInterproscan
GO:0005515
all species →		Molecular Functionprotein 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
K10592HUWE1, MULE, ARF-BP1, TOM1; E3 ubiquitin-protein ligase HUWE1EC: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 FUN_006769-T1 across 85 RNA-seq samples of Siderastrea siderea. 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
6TPM > 0
7Conditions
28.7Max TPM
1.6Mean 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 4 26.61 28.70
unannotated 1 1 12.76 12.76
live coral tissue/skeleton 1 1 17.68 17.68

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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