Detailed information of FUN_001452-T3 in Siderastrea siderea

Genomic Location: contig_1:21869140...21880282
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
PF03909
all species →		BSDBSD domain DomainInterproscan
PF08567
all species →		PH_TFIIHTFIIH p62 subunit, N-terminal domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR011993
all species →		Homologous_superfamilyPH-like domain superfamilyInterproscan
IPR005607
all species →		DomainBSD domainInterproscan
IPR035925
all species →		Homologous_superfamilyBSD domain superfamilyInterproscan
IPR013876
all species →		DomainTFIIH p62 subunit, N-terminalInterproscan
IPR027079
all species →		FamilyTFIIH subunit Tfb1/GTF2H1Interproscan

 PANTHER
PANTHER termDescriptionSource
PTHR12856
all species →		TRANSCRIPTION INITIATION FACTOR IIH-RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000439
all species →		Cellular Componenttranscription factor TFIIH core complexInterproscan
GO:0005675
all species →		Cellular Componenttranscription factor TFIIH holo complexInterproscan
GO:0006281
all species →		Biological ProcessDNA repairInterproscan
GO:0006289
all species →		Biological Processnucleotide-excision repairInterproscan
GO:0006351
all species →		Biological ProcessDNA-templated transcriptionInterproscan
GO:0006360
all species →		Biological Processtranscription by RNA polymerase IInterproscan
GO:0006366
all species →		Biological Processtranscription by RNA polymerase IIInterproscan
GO:0070816
all species →		Biological Processobsolete phosphorylation of RNA polymerase II C-terminal domainInterproscan

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
K03141TFIIH1, GTF2H1, TFB1; transcription initiation factor TFIIH subunit 1-DNA repair and recombination proteinsko03400deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_001452-T3 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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