Detailed information of FUN_004921-T2 in Siderastrea siderea

Genomic Location: contig_4:115577...141730
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
 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF02008
all species →		zf-CXXCCXXC zinc finger domainDomainInterproscan
PF16866
all species →		PHD_4PHD-fingerDomainInterproscan
PF02373
all species →		JmjCJmjC domain, hydroxylaseDomainInterproscan
PF12937
all species →		F-box-likeF-box-likeDomainInterproscan
PF17811
all species →		JHDJumonji helical domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR002857
all species →		DomainZinc finger, CXXC-typeInterproscan
IPR013083
all species →		Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan
IPR019787
all species →		DomainZinc finger, PHD-fingerInterproscan
IPR003347
all species →		DomainJmjC domainInterproscan
IPR032675
all species →		Homologous_superfamilyLeucine-rich repeat domain superfamilyInterproscan
IPR050690
all species →		FamilyJHDM1 Histone DemethylaseInterproscan
IPR001965
all species →		DomainZinc finger, PHD-typeInterproscan
IPR011011
all species →		Homologous_superfamilyZinc finger, FYVE/PHD-typeInterproscan
IPR001810
all species →		DomainF-box domainInterproscan
IPR041070
all species →		DomainJumonji, helical domainInterproscan
IPR006553
all species →		RepeatLeucine-rich repeat, cysteine-containing subtypeInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR23123
all species →		PHD/F-BOX CONTAINING PROTEINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003677
all species →		Molecular FunctionDNA bindingInterproscan
GO:0008270
all species →		Molecular Functionzinc ion bindingInterproscan
GO:0003712
all species →		Molecular Functiontranscription coregulator activityInterproscan
GO:0006357
all species →		Biological Processregulation of transcription by RNA polymerase IIInterproscan
GO:0006482
all species →		Biological Processprotein demethylationInterproscan
GO:0032452
all species →		Molecular Functionhistone demethylase 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
K10276FBXL10_11, KDM2; F-box and leucine-rich repeat protein 10/11EC:1.14.11.27
Chromosome and associated proteinsko03036deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_004921-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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