Detailed information of FUN_012180-T1 in Siderastrea siderea

Genomic Location: contig_9:10699538...10705622
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 RING|RING · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF02225
all species →		PAPA domainFamilyInterproscan
PF13639
all species →		zf-RING_2Ring finger domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR003137
all species →		DomainPA domainInterproscan
IPR013083
all species →		Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan
IPR046450
all species →		Homologous_superfamilyPA domain superfamilyInterproscan
IPR001841
all species →		DomainZinc finger, RING-typeInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR46539
all species →		E3 UBIQUITIN-PROTEIN LIGASE ATL42Interproscan

 Gene Ontology
No Gene Ontology signature was detected for FUN_012180-T1. This gene does have a gene model — the search simply returned no hit.
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_012180-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_012180-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
92.4Max TPM
4.5Mean 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 51.17 55.79
unannotated 1 1 92.40 92.40
live coral tissue/skeleton 1 1 82.00 82.00

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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