Detailed information of RMX38446.1 in Pocillopora damicornis

Genomic Location: SczhEnG_4018:163871...168236
NR annotation: no NCBI-NR hit recorded
Species Pocillopora damicornis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
C1F646Small ribosomal subunit protein uS7 OS=Acidobacterium capsulatum (strain ATCC 51196 / DSM 11244 / BCRC 80197 / JCM 7670 / NBRC 15755 / NCIMB 13165 / 161) OX=240015 GN=rpsG PE=3 SV=1
Q01W88Small ribosomal subunit protein uS7 OS=Solibacter usitatus (strain Ellin6076) OX=234267 GN=rpsG PE=3 SV=1
O21240Small ribosomal subunit protein uS7m OS=Reclinomonas americana OX=48483 GN=RPS7 PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0004083 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00177
all species →		Ribosomal_S7Ribosomal protein S7p/S5eDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR023798
all species →		DomainSmall ribosomal subunit protein uS7 domainInterproscan
IPR020606
all species →		Conserved_siteSmall ribosomal subunit protein uS7, conserved siteInterproscan
IPR000235
all species →		FamilySmall ribosomal subunit protein uS7Interproscan
IPR036823
all species →		Homologous_superfamilySmall ribosomal subunit protein uS7 domain superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11205
all species →		RIBOSOMAL PROTEIN S7Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003723
all species →		Molecular FunctionRNA bindingInterproscan
GO:0003735
all species →		Molecular Functionstructural constituent of ribosomeInterproscan
GO:0006412
all species →		Biological ProcesstranslationInterproscan
GO:0000028
all species →		Biological Processribosomal small subunit assemblyInterproscan
GO:0003729
all species →		Molecular FunctionmRNA bindingInterproscan
GO:0005763
all species →		Cellular Componentmitochondrial small ribosomal subunitInterproscan
GO:0005840
all species →		Cellular ComponentribosomeInterproscan
GO:0019843
all species →		Molecular FunctionrRNA 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
No KEGG orthology assignment for RMX38446.1.

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 Pocillopora damicornis 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 Pocillopora damicornis, 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 →
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