Detailed information of jg20712.t2 in Edwardsia elegans

Genomic Location: ctg_0178:85262...117523
NR annotation: XP_032231443.2, rho guanine nucleotide exchange factor 7 isoform X5 [Nematostella vectensis]
Species Edwardsia elegans · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q14155Rho guanine nucleotide exchange factor 7 OS=Homo sapiens OX=9606 GN=ARHGEF7 PE=1 SV=2
Q9ES28Rho guanine nucleotide exchange factor 7 OS=Mus musculus OX=10090 GN=Arhgef7 PE=1 SV=2
Q8K4I3Rho guanine nucleotide exchange factor 6 OS=Mus musculus OX=10090 GN=Arhgef6 PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0001570 (this species only) · gene tree & orthology
Ubiquitin familyUBD|Other|SH3 · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00621
all species →
RhoGEFRhoGEF domainDomainInterproscan
PF00307
all species →
CHCalponin homology (CH) domainDomainInterproscan
PF00018
all species →
SH3_1SH3 domainDomainInterproscan
PF16614
all species →
RhoGEF67_u2Unstructured region two on RhoGEF 6 and 7DisorderedInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000219
all species →
DomainDbl homology (DH) domainInterproscan
IPR036872
all species →
Homologous_superfamilyCH domain superfamilyInterproscan
IPR011993
all species →
Homologous_superfamilyPH-like domain superfamilyInterproscan
IPR036028
all species →
Homologous_superfamilySH3-like domain superfamilyInterproscan
IPR001452
all species →
DomainSH3 domainInterproscan
IPR001715
all species →
DomainCalponin homology domainInterproscan
IPR035899
all species →
Homologous_superfamilyDbl homology (DH) domain superfamilyInterproscan
IPR003096
all species →
FamilySmooth muscle protein/calponinInterproscan
IPR001849
all species →
DomainPleckstrin homology domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR46026
all species →
RHO-TYPE GUANINE NUCLEOTIDE EXCHANGE FACTOR, ISOFORM FInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005085
all species →
Molecular Functionguanyl-nucleotide exchange factor activityInterproscan
GO:0005515
all species →
Molecular Functionprotein bindingInterproscan
GO:0005737
all species →
Cellular ComponentcytoplasmInterproscan

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
K13710ARHGEF7, PIXB; Rho guanine nucleotide exchange factor 7-Membrane traffickingko04131deepkoala

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 Edwardsia elegans 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 Edwardsia elegans, 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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