Detailed information of FUN_016548-T1 in Siderastrea siderea

Genomic Location: contig_13:11712510...11748517
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
PF11707
all species →		Npa1Ribosome 60S biogenesis N-terminalFamilyInterproscan
PF16201
all species →		NopRA1Nucleolar pre-ribosomal-associated protein 1FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR021714
all species →		DomainNucleolar pre-ribosomal-associated protein 1, N-terminalInterproscan
IPR016024
all species →		Homologous_superfamilyArmadillo-type foldInterproscan
IPR039844
all species →		FamilyNucleolar pre-ribosomal-associated protein 1Interproscan
IPR032436
all species →		DomainNucleolar pre-ribosomal-associated protein 1, C-terminal domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR13500
all species →		NUCLEOLAR PRERIBOSOMAL-ASSOCIATED PROTEIN 1Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000463
all species →		Biological Processmaturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)Interproscan
GO:0000466
all species →		Biological Processmaturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)Interproscan
GO:0005730
all species →		Cellular ComponentnucleolusInterproscan

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
K14861URB1; nucleolar pre-ribosomal-associated protein 1-Ribosome biogenesisko03009deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_016548-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
70TPM > 0
7Conditions
416.3Max TPM
83.3Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
holobiont · low.pH_high.temp 20 13 54.09 194.11
holobiont · low.pH Control.temp 20 17 117.61 394.42
holobiont · control.pH_high.temp 20 17 72.07 244.42
holobiont · control.pH Control.temp 19 17 111.16 416.25
Whole organism 4 4 16.24 20.58
unannotated 1 1 8.66 8.66
live coral tissue/skeleton 1 1 16.40 16.40

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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