Detailed information of FUN_004870-T1 in Siderastrea siderea

Genomic Location: contig_3:19891692...19899638
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
PF14615
all species →		Rsa3Ribosome-assembly protein 3FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR051898
all species →		FamilyRibosome Assembly Protein 3Interproscan
IPR028217
all species →		DomainRibosome-assembly protein 3, C-terminalInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR28127
all species →		RIBOSOME ASSEMBLY PROTEIN 3Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000027
all species →		Biological Processribosomal large subunit assemblyInterproscan
GO:0030687
all species →		Cellular Componentpreribosome, large subunit precursorInterproscan

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_004870-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_004870-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
31TPM > 0
7Conditions
598.7Max TPM
61.8Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
holobiont · low.pH_high.temp 20 8 94.65 598.71
holobiont · low.pH Control.temp 20 9 82.67 457.17
holobiont · control.pH_high.temp 20 5 56.37 414.10
holobiont · control.pH Control.temp 19 3 27.32 323.77
Whole organism 4 4 11.24 15.55
unannotated 1 1 8.27 8.27
live coral tissue/skeleton 1 1 10.90 10.90

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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