Detailed information of FUN_018054-T3 in Siderastrea siderea

Genomic Location: contig_15:6482941...6516845
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
PF13234
all species →		MTR4_beta-barrelMtr4-like, beta-barrel domainDomainInterproscan
PF21408
all species →		MTR4-like_stalkExosome RNA helicase MTR4-like, stalkDomainInterproscan
PF00270
all species →		DEADDEAD/DEAH box helicaseDomainInterproscan
PF00271
all species →		Helicase_CHelicase conserved C-terminal domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR027417
all species →		Homologous_superfamilyP-loop containing nucleoside triphosphate hydrolaseInterproscan
IPR016438
all species →		FamilyATP-dependent RNA helicase SKI2-likeInterproscan
IPR050699
all species →		FamilyRNA/DNA HelicaseInterproscan
IPR025696
all species →		DomainExosome RNA helicase MTR4-like, beta-barrel domainInterproscan
IPR014001
all species →		DomainHelicase superfamily 1/2, ATP-binding domainInterproscan
IPR001650
all species →		DomainHelicase, C-terminal domain-likeInterproscan
IPR048392
all species →		DomainExosome RNA helicase MTR4-like, stalkInterproscan
IPR011545
all species →		DomainDEAD/DEAH box helicase domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR12131
all species →		ATP-DEPENDENT RNA AND DNA HELICASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003723
all species →		Molecular FunctionRNA bindingInterproscan
GO:0003724
all species →		Molecular FunctionRNA helicase activityInterproscan
GO:0006401
all species →		Biological ProcessRNA catabolic processInterproscan
GO:0000460
all species →		Biological Processmaturation of 5.8S rRNAInterproscan
GO:0005634
all species →		Cellular ComponentnucleusInterproscan
GO:0003676
all species →		Molecular Functionnucleic acid bindingInterproscan
GO:0005524
all species →		Molecular FunctionATP 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
K12598MTR4, SKIV2L2; ATP-dependent RNA helicase DOB1EC:5.6.2.6
Transfer RNA biogenesisko03016deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_018054-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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