Detailed information of BRAKERXEIP00000029541.1 in Muricea muricata

Genomic Location: chr16:2086370...2099045
NR annotation: XP_028414830.1, splicing factor 3A subunit 2-like [Dendronephthya gigantea]
Species Muricea muricata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q15428Splicing factor 3A subunit 2 OS=Homo sapiens OX=9606 GN=SF3A2 PE=1 SV=2
A5PJN8Splicing factor 3A subunit 2 OS=Bos taurus OX=9913 GN=SF3A2 PE=2 SV=1
Q6AXT8Splicing factor 3A subunit 2 OS=Rattus norvegicus OX=10116 GN=Sf3a2 PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0005143 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF16835
all species →
SF3A2Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11)DomainInterproscan
PF12874
all species →
zf-metZinc-finger of C2H2 typeDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR003604
all species →
DomainMatrin/U1-C-like, C2H2-type zinc fingerInterproscan
IPR000690
all species →
DomainMatrin/U1-C, C2H2-type zinc fingerInterproscan
IPR036236
all species →
Homologous_superfamilyZinc finger C2H2 superfamilyInterproscan
IPR031781
all species →
DomainSF3A2 domainInterproscan
IPR052092
all species →
FamilySplicing Factor 3A Subunit 2Interproscan
IPR013087
all species →
DomainZinc finger C2H2-typeInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR23205
all species →
SPLICING FACTOR 3A SUBUNIT 2Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003676
all species →
Molecular Functionnucleic acid bindingInterproscan
GO:0008270
all species →
Molecular Functionzinc ion bindingInterproscan
GO:0005634
all species →
Cellular ComponentnucleusInterproscan
GO:0000245
all species →
Biological Processspliceosomal complex assemblyInterproscan
GO:0005686
all species →
Cellular ComponentU2 snRNPInterproscan
GO:0071004
all species →
Cellular ComponentU2-type prespliceosomeInterproscan
GO:0071013
all species →
Cellular Componentcatalytic step 2 spliceosomeInterproscan

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
K12826SF3A2, SAP62; splicing factor 3A subunit 2-Spliceosomeko03041deepkoala

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 Muricea muricata 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 Muricea muricata, 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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