Detailed information of Ahemp_025302-T1 in Acropora hemprichii

Genomic Location: scaffold_9027:1496...4430
NR annotation: XP_029197469.2, S1 RNA-binding domain-containing protein 1-like [Acropora millepora]
Species Acropora hemprichii · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q8N5C6S1 RNA-binding domain-containing protein 1 OS=Homo sapiens OX=9606 GN=SRBD1 PE=1 SV=2
Q5RDI0S1 RNA-binding domain-containing protein 1 OS=Pongo abelii OX=9601 GN=SRBD1 PE=2 SV=1
Q497V5S1 RNA-binding domain-containing protein 1 OS=Mus musculus OX=10090 GN=Srbd1 PE=2 SV=3
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0003732 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF12836
all species →		HHH_3Helix-hairpin-helix motifDomainInterproscan
PF17674
all species →		HHH_9HHH domainDomainInterproscan
PF00575
all species →		S1S1 RNA binding domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR050437
all species →		FamilyBacterial ribosomal protein bS1Interproscan
IPR010994
all species →		Homologous_superfamilyRuvA domain 2-likeInterproscan
IPR023323
all species →		Homologous_superfamilyTex-like domain superfamilyInterproscan
IPR041692
all species →		DomainHHH domain 9Interproscan
IPR003029
all species →		DomainS1 domainInterproscan
IPR012340
all species →		Homologous_superfamilyNucleic acid-binding, OB-foldInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10724
all species →		30S RIBOSOMAL PROTEIN S1Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003729
all species →		Molecular FunctionmRNA bindingInterproscan
GO:0003735
all species →		Molecular Functionstructural constituent of ribosomeInterproscan
GO:0006412
all species →		Biological ProcesstranslationInterproscan
GO:0003676
all species →		Molecular Functionnucleic acid 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 Ahemp_025302-T1.

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 Acropora hemprichii 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 Acropora hemprichii, 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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