Detailed information of FUN_054963-T1 in Siderastrea siderea

Genomic Location: contig_98:1243394...1251487
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
PF13869
all species →		NUDIX_2Nucleotide hydrolaseDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR016706
all species →		FamilyCleavage/polyadenylation specificity factor subunit 5Interproscan
IPR000086
all species →		DomainNUDIX hydrolase domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR13047
all species →		PRE-MRNA CLEAVAGE FACTOR IM, 25KD SUBUNITInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003729
all species →		Molecular FunctionmRNA bindingInterproscan
GO:0005849
all species →		Cellular ComponentmRNA cleavage factor complexInterproscan
GO:0031124
all species →		Biological ProcessmRNA 3'-end processingInterproscan
GO:0006397
all species →		Biological ProcessmRNA processingInterproscan
GO:0017091
all species →		Molecular FunctionmRNA 3'-UTR AU-rich region 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
K14397NUDT21, CPSF5, CFIM25; cleavage and polyadenylation specificity factor subunit 5-Messenger RNA biogenesisko03019deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_054963-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
43.8Max TPM
2.4Mean 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 29.34 34.15
unannotated 1 1 43.54 43.54
live coral tissue/skeleton 1 1 43.80 43.80

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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