Gene detail

Detailed information of alvinactis_v1_g14047 in Alvinactis idsseensis sp. Nov.

Genomic Location: chr_7:2552654...2578724
NR annotation: XP_020900181.1, LOW QUALITY PROTEIN: son of sevenless homolog 1-like [Exaiptasia diaphana]
Species Alvinactis idsseensis sp. Nov. · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

alvinactis_v1_g14047

ATGCCTATTTCGGAATGTGAGGAGACGTTGGATCCTTCTAAATGGAAAGGGATGTTGTTGTCGCCTTTGCGCAAGGTGCAAAAAGACGTCCATCCATCTTTAGAAGTGCAGGACGAAGCTCTGGATTACATTGAAAATCTTATCATAAACTTACTGTATCATTTATGTGCATGCCAGCCACATACTGTTATTGATGTAGAAGACAGAGTCAGTAAGACTTTCCCTGATCCAATTGATAAATGGGCCATTTTAGATGCTCAGTCTGCCGTTGAGAAGGGAAAGAAAAAGAGTACACAACTGATCCTACCGGCAGACAAAATTCATCCACTCATTAAGGATATACTAGGATACAAGGTTGATTATCAGGTGTCTGTATATGTCGTAGCTGTCATGGAGTATATCTCTGCTGATATACTAAAGTTGGCTGGTAATTACGTTAAAAACATTAGACATCTTGAGATTACCTGCCAAGACATTAAAGTTGCTTTGTTCGCAGATAAAGTATTAATGTACATGTTTCATCCTGATGATATGGACGCCTCAATAGAAGAAGAGAGATGTGGCAACCAAGAGCTCCTTACTTATGACGAGGTCATCCGAGAAATGATGATTGCTGAGTCCAAGTATATCAGGGATTTACACATGTTGATTAAGGTTTTCAGAGCTCCGTTCATTGAAGCCAAAGATTTATTCACGCAAGAAGATGTCGACAAAGTATTTAGCAATATAACAGAGATATATGATTTCTCTGTGGCTTTTTATGGGCTCTTGGAAGCTGCTATAGAAGTTGCAGATGAGGGGAAGCCACCCGCCATTGGAACATGTTTTGAAGAAATGGCTGAGGGTGCTGAGTTTGAGGTATACGAGAACTTTGCCGAGGAACAAATGGCAACAACAAGCAAAATGTACCGACATCTTGGAATTGGTGGTAAACTGTACGAGTTGCTGGCAAGACCTAAGGTTGCAGAGTACTTTAGAAGTAAAGGTGATCGATTTAAGGAAACTGTGCAGTACTGTCTGCCTAAATTACTAATGATACCAGTACAACACTGTATGCACTACTTTGAGGTGGTTAGGTTATTATTGAAAACAAGTCCTGATGAAAATGACTTGGAAAGCTTagaacagGCTCAGAGTGCTTTAAGTGTGCTCCAAGCTAACATGGAAAGGATACTTTCCTCTGGTAACGTGCTCAAGAAAAATGAGGATAAATTTAGCAAAGCTCAAAAAAGAAAATCGGGTGTTTTGAAATCAGCAGCATCCATAATGAATGAACTACAACGAAGCATTGAGGGCTGGGAGGGTAAAGACATCTCCCAAACTTGTACTGAAATTCTAAAAGAGGGAACGCTTGGTAAAATGCATCCCAGTAAAAAGTATACAGAGCGATATGTGTTCCTGTTAGATGGCCTTTTAGTATGCTGTAAGCAAAATACCAGACACTCACTAACTGGACAGAACCCACCAGAGTACAGACTAAAGGAAAAGTATTTCCTGAGGAAAGCTGACATAAATGACTTAGATGACACTGAAGATATTAAAAATGCTTTTGAAGTAGTACAGCATGATCAGCCCAAGGCATTGTTTATCTGTAAAAATGAAACGGAAAAAAATGAATGGATGGCCATGGTGATGACACTCTACATGAGAAGTACTTTAGATCGAATGCTAGACCACATGCTGACCGAAGAAGAAAAAGCCATACCACTTAGAATGCCAAGTCCTGATGAGTATTGTTTTGCAGTTGAAGATGCTGATGACAATATTGTATTTGAAGAATCCCAAGGGAACTCAGTGGCTCCAGTAATCAGAGGAGGGACTTTAATCAAACTGATAGAAAGACTGACACATCACAAATATGCTGATCCATCATTTGTACGTACATTTCTGACCACGTATCGGTCATTTTGCAAACCCAGGGAACTACTCGACTTACTAATAATTCCTGAACCTCCACTCAGTGAAGATGACCGCCAAGCTGTGGCAAGAGGAAAACCTGTGTTGAGAGAGGATTTGAAGAGATTTAAGAAAGAGTATGTTCAACCTGTCCAACTAAGAATTCTCAATGGAATTCGTCACTGGGTTGACAACCACTTCTACGATTTCGAAAGAGACAAACAGTTGCTAAGAAAACTAGAGATATTCCTGTCTGAAGTCAATGGTAAAGCCATGAGAAGATGGGTTGAGTCAATCAACAAAGTCATCCATAGAAAGAACAACTGTGACTGCGACAGCCTCGCACCAGAATTTACGTTTGAGACTGATCCTCCTCCAATTGAATGGCATTTGACCAAAGACTATGAGAAGTTTGACGTCCTTACACTTCACCCAATCGAGATAGCGCGTCAGCTTACCTTAATTGAATCCGACCTTTACAGGGCTGTACGACCATCAGAGTTAGTAGGAAGTGTATGGACAAAGGAAGACATCAAGCATTTAACATCACCAAACCTACTGAAAATGATCCATCACACCAACCACATTACTGTATGGTTTGAGAGAAGTATCTTAGAGATGTCAAACCTTGAAGAGAGAGTTGCTGTACTAAGTAGAATCATAGATATTTTGAATGTTTTCCAAGAATTGAATAATTTTAACGGCCTCTTAGAAGTAGTTAGCGCATTGAATTCATCACCAATTTACAGATTACAACACACTTTTGCGGAATTATCTCCCAAGCAACAAAGAATCCTCGAGGAAGCAAAGGACCTCTCCAACGATCACTACAAGAAATACATAGAAAAACTACGCTCCATAAACCCACCTTGTGTTCCATTCTTTGGAATGTACATGTCTAACATATTAAAGATTGAAGATGGAAACCCAAACTTCTTGCCAAGATATCCTGAAGGAATTATTAACTTTAGCAAAAGGCGGAAAGTAGCGGAGATAACTGGTGAAATCCAACAGTACCAGAACCAGCCGTACTGTCTACAGAGTGACATCATGATGAGAGATTACTTGGAAAGTTTAGACCCTTTTGATGGTCGAACAGACAAAGAAATGCAAGATTACTTGTACAAGCTCTCACTACAAATCGAGCCAAGAAATTCCAAGCAAGCACCAAAATGCCCACGAGTCACAGAACTTTCACTGAAATCTCCAGGAACAAGAGCTGGCTTTGTTCACTCTAGAATCGGCTCAGCATCCACCATTAGACGGTCATTGTCTCAAGCGTCGTCGATATACATGCCAGAAGCTGGCGAAGTAACTTCACCCACGTCGTCTACATTCCACACTACTCTATCTAGAACCCCGTTATCTGTCAACATGTTCTCACCAAGCGAAACAACTCCGCTAATCCCTGAATCGGCCTTCGATGAGAGTGATCGAGATTATGAAAATATTGAAAACTTTGAGCTAAAAGAAGAGGGTCCGCCAGCTCCGCCAGCGCCGCCGATACTGCCTCCCAGGCCCCCCAAACAACGAACCACGTCGGTTATAGAAGAACGATCACTTCCTGATGTTTCTCCCATGAAGAGAATGAACTCTGAGCCTACTTTTAATTATAAATTCAAAGAGGAATCCCAAGCAGCAATAACTGCACCTGAATTACCTCAAAAGCCTGTCAAGATGCCAGAACGGCGGCCTCCACCCCCACCCCCAGTGGAACCAGCCGAAGTTGAAATCGAAGCCCCACCCCTCCCCCCTCGACATCCTCTTAGGACACCACCACCAACGGCAGTCGCAGCGCCAGCACCCATTCCCCCACCCCTACCCCCTAGGACATCCCAAGTCATCGATCCAGCGACTGTTCCAACAAGCCCCATTGAGCAAAATGGTGCAGATATCGTACCACCTGCTCTACCGCCCAAAACTAAGAAGACCTGA

Transcript

alvinactis_v1_g14047

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q07890	Son of sevenless homolog 2 OS=Homo sapiens OX=9606 GN=SOS2 PE=1 SV=2
Q07889	Son of sevenless homolog 1 OS=Homo sapiens OX=9606 GN=SOS1 PE=1 SV=1
Q02384	Son of sevenless homolog 2 OS=Mus musculus OX=10090 GN=Sos2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002907 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00169 all species →	PH	PH domain	Domain	Interproscan
PF00618 all species →	RasGEF_N	RasGEF N-terminal motif	Domain	Interproscan
PF00617 all species →	RasGEF	RasGEF domain	Family	Interproscan
PF00621 all species →	RhoGEF	RhoGEF domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035899 all species →	Homologous_superfamily	Dbl homology (DH) domain superfamily	Interproscan
IPR000651 all species →	Domain	Ras-like guanine nucleotide exchange factor, N-terminal	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR000219 all species →	Domain	Dbl homology (DH) domain	Interproscan
IPR019804 all species →	Conserved_site	Ras guanine-nucleotide exchange factor, conserved site	Interproscan
IPR008937 all species →	Family	Ras-like guanine nucleotide exchange factor	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR009072 all species →	Homologous_superfamily	Histone-fold	Interproscan
IPR001895 all species →	Domain	Ras guanine-nucleotide exchange factors catalytic domain	Interproscan
IPR023578 all species →	Homologous_superfamily	Ras guanine nucleotide exchange factor domain superfamily	Interproscan
IPR036964 all species →	Homologous_superfamily	Ras guanine-nucleotide exchange factor, catalytic domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23113 all species →	GUANINE NUCLEOTIDE EXCHANGE FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0007264 all species →	Biological Process	small GTPase-mediated signal transduction	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007265 all species →	Biological Process	Ras protein signal transduction	Interproscan
GO:0043547 all species →	Biological Process	positive regulation of GTPase activity	Interproscan
GO:0046982 all species →	Molecular Function	protein heterodimerization activity	Interproscan

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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03099	SOS; son of sevenless	-	Endocrine resistance	ko01522	deepkoala

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 Alvinactis idsseensis sp. Nov. 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 Alvinactis idsseensis sp. Nov., 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.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search 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 found	open →
Expression heatmap	Draw 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 / orthogroup	Look 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 analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →