Detailed information of evm.model.HiC_scaffold_121.5 in Chrysaora quinquecirrha

Genomic Location: HiC_scaffold_121:28452...35055
NR annotation: XP_014916696.1, PREDICTED: sodium/calcium exchanger 1 isoform X1 [Poecilia latipinna]
Species Chrysaora quinquecirrha · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q01728Sodium/calcium exchanger 1 OS=Rattus norvegicus OX=10116 GN=Slc8a1 PE=1 SV=3
P32418Sodium/calcium exchanger 1 OS=Homo sapiens OX=9606 GN=SLC8A1 PE=1 SV=3
P70414Sodium/calcium exchanger 1 OS=Mus musculus OX=10090 GN=Slc8a1 PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0001091 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01699
all species →
Na_Ca_exSodium/calcium exchanger proteinFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR051171
all species →
FamilyCalcium/Cation AntiporterInterproscan
IPR004836
all species →
FamilySodium/calcium exchanger proteinInterproscan
IPR044880
all species →
Homologous_superfamilyNCX, central ion-binding domain superfamilyInterproscan
IPR004837
all species →
DomainSodium/calcium exchanger membrane regionInterproscan
IPR038081
all species →
Homologous_superfamilyCalX-like domain superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11878
all species →
SODIUM/CALCIUM EXCHANGERInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005432
all species →
Molecular Functioncalcium:sodium antiporter activityInterproscan
GO:0005887
all species →
Cellular Componentplasma membraneInterproscan
GO:0015491
all species →
Molecular Functionobsolete cation:cation antiporter activityInterproscan
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0030001
all species →
Biological Processmetal ion transportInterproscan
GO:0030424
all species →
Cellular ComponentaxonInterproscan
GO:0035725
all species →
Biological Processsodium ion transmembrane transportInterproscan
GO:0042383
all species →
Cellular ComponentsarcolemmaInterproscan
GO:0098703
all species →
Biological Processcalcium ion import across plasma membraneInterproscan
GO:0098794
all species →
Cellular ComponentpostsynapseInterproscan
GO:0006816
all species →
Biological Processcalcium ion transportInterproscan
GO:0055085
all species →
Biological Processtransmembrane transportInterproscan

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 evm.model.HiC_scaffold_121.5.

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 Chrysaora quinquecirrha 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 Chrysaora quinquecirrha, 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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