Gene detail

Detailed information of BRAKERXEIP00000047868.1 in Muricea muricata

Genomic Location: chr5:14608496...14639355
NR annotation: XP_028418751.1, LOW QUALITY PROTEIN: phosphoinositide 3-kinase regulatory subunit 4-like [Dendronephthya gigantea]
Species Muricea muricata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERXEIT00000047868

ATGGGGAACCAGCTGTCCAGTATAGCTCCTTCACAGATATTAAGTGTGGACCATTATTTCACTGACCTACGAGATTATGAATATGATACAAGCTTGGGCAGTACAAGGTTTTTTAAAGTTGCCAGAGCCAAACATAGGGAAGGCTTGTGTGTTGTGAAAGTATTTGCTGTTCATGACCCGTCATTACCACTACAGACGTACCATAAACATATCAAAGAGATCACCGATAAATTGCAAACAACTCCATACGTCCTCCCATTTCAAAAGATCATTATCGCAGAAAAAGCTGGGATATTGGTGCGGCAATATATAAAAGACAACTTGTATGATAGAATAagCACAAGGCCATTCTTAAATCTTCTTGAGAAGAAATGGATTGTTTTCCAGCTGTTATGTGCTCTTGTGCTGTGCCATCAAAATGAGATCTATCATGGTGATATAAAAACAGAGAATATCATGGTCACAAGCTGGACCTCCGTTCTCCTCACGGATCTTGCGTCATTCAAACCAACATACCTTCAAGAAAACAACCCCGCTGACTTTTCGTATTTTTTCGACACTTCACGAAGACGAACGTGTTACCTGGCGCCGGAACGGTTCCTCGACACTCGCGCGAGCGACGTGGCAAGTTCGACATCCAATGCGAGTTCGGAACAACAAGGAGACGGATCGCTAGATCTCGGCCTCATAAAGGATCACGTCTCTGAGTTGACATCGAAAATGGATATTTTTTCCATGGGATGTGTTATAGCTGAATTGTTCAGTGAAGGATCACCATTGTTTGATCTGTCCAAACTGCTGGCATATCGTAGCGGAGATTATGATCCCAAGCCAGCATTGGAGAAAATTGATGATAAGCACGTCAGGGAATTAATAACTGAGATGATTTCCAAGAATCCAGAACAACGAAGTGAGGCGTGTGAATACCTTGACAAGTACAGAGGTTCTCTTTTTCCCGACGAATTCTATACATTTTTGCGCGCATTTATGGTTCGCTTTGCATCATTACCTGTTCTCACACCGGACGAAAAGATTGCGAGAATTGCGGATAATATCTCGGTGATTTTAAATGAACTTTGCAAGCGTGACAGTGAAGATGAAGAAAACGATCTTGATAGCCTTGTTTTGATAATTTCATTGATTACATCAAGTGTTCGAAATTGTGTTTATTGTGATTCCAAGTTAAAATGCCTTGACTTGCTGCTACAACTGGCGCAACACTCGAGTGACGAAATGATATTGGAAAGGGTAGTACCGTACATTTTATACCTTATCGGGGACAGTGTACCCCGGGTTAGAGCCCGGGCACTTTGGACCTTGACACAGACATTACAGCTGGTACGAATGTTGCCTCCAAACGATGGGAACATCTTCCCTGAGTACATACTTCCTGCCCTGGCTAATTTCCCCGATGATCAAGAGGTAATTGTTCGCATAGCCTATGCTGAGAACATTGCTCCCATAGCGGAGACTGCGTTAAAATTCCTAGAAATGGCTCAATTACGGTATAATAACATGGATGCCGAAGATGGAGGCATGGAGCAAACATTGCGATACCAGGGTAGCTATGACGTGGAACTTCAAGAACTACACGAAGTGATTCAGAGCAAAGTAGTAAACCTCCTCAGCGATCCAGAGAACGTCGTGAAACAAACATTGCTGGAAAAGGGAATCACTAGATTGTGCGTGTTTTTTGGCCGACAGAAAGCAAACGATGTACTTCTCTCTCATATGATCACGTTCTTAAATGACAAGCAAGATTGGCACCTGCGTGCTGCGTTCTTTGATAGCATCGTGGGAGTAGCGTCTTACGTCGGTTGGCAAAGTTTGGCGATGCTTAAACCACTACTACAGCAGGGTATCACAGATAAGGAAGAATTTGTGGTGTGTAAAGCTCTGAATGCGCTTACTGGTCTCACGGAACTCGGTTTACTGCAGAAATCAACACTGTACGACTTTACTGCTGATATTGTTGTTCTCCTTTGTCACCCGAATATGTGGATTCGTTACGGGGCCGTTGGATTTGTCACCGCAGTAGCTCGAAGTCTGAGTGTCGTTGATGTCCATTGTAAACTGTTACCATTACTGAGACCCTTCGTTAAGGAAAAGATAATCCAGGCAGATCAAGATATGTTGTTGATTAGTGTTCTTAGGGAACCTGTGTCGCGACCTGTTTTCGATACTGTGGTCCGATCTCAACATGTCGTCCCATTCTTTAACAGCCTTTATGATCGCCAGCTTATACGACAAGAGAACAAGCAAGGACAGAAAGCAGAATATCCCAAACAGGAAAATGACAGCCTCTCACACATGTTCCGGAAACTGATCGTGCAAGGCATGAACGACGATCAAGAGGATATGCTCATTCATCTCAAGACAGTCATTCTGAAAGTGCATCACTCGAAAACCGCGTCTCCGGAAAAAAGCGAAAATGTGGAAGATCCGTCTAGGCCTGGGGTTATCGATTTGAAGAAATTCGGCGGCACCATAGTAAGACGTCATGCCGATTTGGTACTGAAAAGCGAACAAAAACCGCACAACGCGTCGTCACAGACGAAAAACGTGAAGAAAGCGAAGCGAGAATATCAATCTCCTCTTAATGCTGAATGGAATCAAATATTTGGTAACACCAATCAGGCAGCGAAATCAACAACTTTACAACAGCAAGGAGATATTCTGCCTGTTAAAAGACCGTTGGCAAGATCTGTTTCACTACCTCAACAAGGTAAACCTAAATCACGTACAAACTCTGCTAGCGAGACGTACTCCAACTCAGTCGCCCAACCTAGATCTCGCACTCCTCCTGTCCAACCAAAGATCAAACCAGAGCAAAATAAACCGACAGCGCAACCTGATCACTCGCGTCCTGGGCCGAGTTATAGACAGAATCTACGAGATTTAGTTAAACATAAGAGAGAACAGTATGCTGAAGAGATGAaggaaggatcatctcttattgatccaacgCTACTACaTGTAAAAACAAAGGAACTCATAGACGAAGTTCTTAACACCCACAAAAATGGACAGATGAAACGTCCAAAGGGAACTTTGCTAATCCATCTTCATGAACACAGATCTGCTATTAACAGGCTTCACGTTTGTCCCAATACATCCCTATTTGCCTCCGCATCGAATGATGGTACAGTGAAACTCTGGGACGCTGAACGTGTGGAGAAACAAGGAATGGTCGTCAAGTCTTGTTTTACATTTCAACTCCAGCAAGGAGAAACACCAACACGTGGCAAAGTGAAAGGTCTGGTATTCTTGCAAGGAGAGCAGTCGTTTGCCTGTGCTACGGACAAAGGGGATATATACATCATCAGTCCCGAGGTGGCACCGAGCGCATCACCCTCGCAATGCTGTCAATATAAATCCCTAATTAAACTGAATACAACGTTGGATACAGCTCAAGGTGGTGATCTAGTCGATATGCATCAGTTTGATACAGCTTCTCATTCTGTGCTGGCCTACGCCACAGTTCGTGGTTTGATCTACGGTTGGGATATACGTGCACCAAAAACAATATGGAAGTTGCAAAATGACCCCGCATTAGGCTTGATAACGTCCTTCGTGGTCGATCCTTCACAATACTGGCTCACTGCCGGTACTTGTAACGGGGAGATAGTCTGTTGGGACATGAGATTTCAGCTTCCCGTAGCACGACTCACTCATCCCAGAGgcaagaacgaaatcttttactacagcaaGAAAGAcaatcctaagattagtagagctgcaaagtttgGTGCTCGAGTTCGACGTTTGTCAGCGGCGCCGCTATTACAGTGTAAGCCATCGTGGGTGACCTGTGCTGTCGATGGTAACAACGAGGTGTCTGTGTGGAACTTGGAGACTGGTGCCTGTGAGAAATCCCTTTGGGCAAGTCATGCCCCGCCTCTCTCTCAAACACAGGTATCGCCACACGCCGTGTACGGAATCTACACCAGTCCGCCTGACGCTGGTCAGTTTATTCTCACAGCAGGCTCAGATAGACGTATACGTCTCTGGGACATGCAGTTTCCAAAGGATTCTAGTATTGTGTCCGGTTCATCTTCTGATAACCTAAATGATGTCGTCTTGAAATACAACTCTCGTCTAATCGATGGTACGGAAGTTATCAGAGAAGTGTACTGTAAATCAAACCAAGTTATGACACAAGATGACGTACCGAAGCGCGGTCCTGACAAACCACCCACTGGTCACCATGATTGCATTACAGATTTAGCTTTTGTCACAAGTCCCCAACATTTTCTCATATCTGCAGGCCGAGATGGCGTCATCAAGATTTGGAAATAG

Transcript

BRAKERXEIT00000047868

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8VD65	Phosphoinositide 3-kinase regulatory subunit 4 OS=Mus musculus OX=10090 GN=Pik3r4 PE=1 SV=3
Q99570	Phosphoinositide 3-kinase regulatory subunit 4 OS=Homo sapiens OX=9606 GN=PIK3R4 PE=1 SV=3
P0C0R5	Phosphoinositide 3-kinase regulatory subunit 4 OS=Rattus norvegicus OX=10116 GN=Pik3r4 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001263 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR020472 all species →	Repeat	G-protein beta WD-40 repeat	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR008271 all species →	Active_site	Serine/threonine-protein kinase, active site	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR045162 all species →	Family	Serine/threonine-protein kinase Vps15-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17583 all species →	PHOSPHOINOSITIDE 3-KINASE REGULATORY SUBUNIT 4	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0005770 all species →	Cellular Component	late endosome	Interproscan
GO:0006623 all species →	Biological Process	protein targeting to vacuole	Interproscan
GO:0016236 all species →	Biological Process	macroautophagy	Interproscan
GO:0030242 all species →	Biological Process	autophagy of peroxisome	Interproscan
GO:0034271 all species →	Cellular Component	phosphatidylinositol 3-kinase complex, class III, type I	Interproscan
GO:0034272 all species →	Cellular Component	phosphatidylinositol 3-kinase complex, class III, type II	Interproscan
GO:0045324 all species →	Biological Process	late endosome to vacuole transport	Interproscan
GO:0071561 all species →	Cellular Component	nucleus-vacuole junction	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
K08333	PIK3R4, VPS15; phosphoinositide-3-kinase, regulatory subunit 4	EC:2.7.11.1	Membrane trafficking	ko04131	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 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.

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 →