Detailed information of ENSOFVP00000036847.1 in Cyphastrea salae

Genomic Location: chr8:12969203...12973402
NR annotation: XP_015768982.1, PREDICTED: 60S ribosomal protein L38 [Acropora digitifera]
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
Q95V84Large ribosomal subunit protein eL38 OS=Branchiostoma belcheri OX=7741 GN=RPL38 PE=3 SV=1
Q32PB9Large ribosomal subunit protein eL38 OS=Bos taurus OX=9913 GN=RPL38 PE=1 SV=4
P63173Large ribosomal subunit protein eL38 OS=Homo sapiens OX=9606 GN=RPL38 PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0011471 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01781
all species →		Ribosomal_L38eRibosomal L38e protein familyFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR038464
all species →		Homologous_superfamilyLarge ribosomal subunit protein eL38 superfamilyInterproscan
IPR002675
all species →		FamilyLarge ribosomal subunit protein eL38Interproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10965
all species →		60S RIBOSOMAL PROTEIN L38Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003735
all species →		Molecular Functionstructural constituent of ribosomeInterproscan
GO:0005840
all species →		Cellular ComponentribosomeInterproscan
GO:0006412
all species →		Biological ProcesstranslationInterproscan
GO:0022618
all species →		Biological Processprotein-RNA complex assemblyInterproscan
GO:0022625
all species →		Cellular Componentcytosolic large ribosomal subunitInterproscan

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
K02923RP-L38e, RPL38; large subunit ribosomal protein L38e-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 →
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