Detailed information of ENSDTNP00000035985.1 in Metridium senile

Genomic Location: chr8:8159006...8162327
NR annotation: XP_020907285.1, ribosomal protein S12, mitochondrial-like [Exaiptasia diaphana]
Species Metridium senile · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
C5CGR9Small ribosomal subunit protein uS12 OS=Kosmotoga olearia (strain ATCC BAA-1733 / DSM 21960 / TBF 19.5.1) OX=521045 GN=rpsL PE=3 SV=1
A8Z664Small ribosomal subunit protein uS12 OS=Karelsulcia muelleri (strain GWSS) OX=444179 GN=rpsL PE=3 SV=1
P46744Small ribosomal subunit protein uS12m OS=Prototheca wickerhamii OX=3111 GN=RPS12 PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0007340 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00164
all species →		Ribosom_S12_S23Ribosomal protein S12/S23FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR005679
all species →		FamilyRibosomal protein uS12, bacterial-typeInterproscan
IPR012340
all species →		Homologous_superfamilyNucleic acid-binding, OB-foldInterproscan
IPR006032
all species →		FamilySmall ribosomal subunit protein uS12Interproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11652
all species →		30S RIBOSOMAL PROTEIN S12 FAMILY MEMBERInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003735
all species →		Molecular Functionstructural constituent of ribosomeInterproscan
GO:0006412
all species →		Biological ProcesstranslationInterproscan
GO:0015935
all species →		Cellular Componentsmall ribosomal subunitInterproscan
GO:0005840
all species →		Cellular ComponentribosomeInterproscan

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
K02950RP-S12, MRPS12, rpsL; small subunit ribosomal protein S12-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 Metridium senile 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 Metridium senile, 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