Detailed information of ENSOFVP00000035943.1 in Cyphastrea salae

Genomic Location: chr9:31100300...31103942
NR annotation: XP_020609863.1, 40S ribosomal protein S3a [Orbicella faveolata]
Species Cyphastrea salae · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
A7S3J7Small ribosomal subunit protein eS1 OS=Nematostella vectensis OX=45351 GN=v1g242621 PE=3 SV=1
B5FZS9Small ribosomal subunit protein eS1 OS=Taeniopygia guttata OX=59729 GN=RPS3A PE=2 SV=1
P49242Small ribosomal subunit protein eS1 OS=Rattus norvegicus OX=10116 GN=Rps3a PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0007928 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01015
all species →		Ribosomal_S3AeRibosomal S3Ae familyFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR027500
all species →		FamilySmall ribosomal subunit protein eS1, eukaryotesInterproscan
IPR001593
all species →		FamilySmall ribosomal subunit protein eS1Interproscan
IPR018281
all species →		Conserved_siteSmall ribosomal subunit protein eS1, conserved siteInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11830
all species →		40S RIBOSOMAL PROTEIN S3AInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005829
all species →		Cellular ComponentcytosolInterproscan
GO:0003735
all species →		Molecular Functionstructural constituent of ribosomeInterproscan
GO:0005840
all species →		Cellular ComponentribosomeInterproscan
GO:0006412
all species →		Biological ProcesstranslationInterproscan

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
K02984RP-S3Ae, RPS3A; small subunit ribosomal protein S3Ae-Ribosomeko03011deepkoala

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

Co-expression network

Genes whose expression across the transcriptome samples of Cyphastrea salae tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Cyphastrea salae, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.template foundopen →
Expression heatmapDraw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.no expression matrix–
Gene family / orthogroupLook this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.open →
Gene set analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
TOP