Gene detail

Detailed information of BRAKERXEIP00000014458.1 in Muricea muricata

Genomic Location: chr1:100384538...100401462
NR annotation: CAB3993442.1, Fibroblast growth factor receptor 1 [Paramuricea clavata]
Species Muricea muricata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERXEIT00000014458

ATGCACTACACTGATTATATCATCTACCATATTCAATCTAAAGAATTTGGTTTTGTACAACGTTATGGCCAGTATGATAACTTGGATTTTCTTCAATTTACCAAAACTGGAACCCCAGCTAACTTTACGTTTACGGAAGAAAATGCACTTCAGCTGGTAGACATGACCAAAACAGCTAAGAAATGCATCACAAGAATGGCGGACCAACAGCTCATACTCACTGATAACTGCATGCTTGATCAATGGGATTACAACTCCACTTACCGTCGTTTACAAGATATGACATCACCTGATCAGGGATGTTTGAGTCCGTGGGACTTTCACCATAAACAACCGTCTGACCTTAATGTCACAATTGGCTTGGCACCTTGTTCTCATTGGAATCAAATAGTGCTGCAAGCTGTGGGAAAACGGGTTTCTATCCTCAACAACACTGATAGAAATTCAGAAGACACTTCAAACACCCGTTCTTTTGCAGAAGACATAAATGGTGTTGATGTGGGCAAAACTTATTTAATtaaatctatgcaatatggatATGTAAATTATTACGGACAACATAACGATCGGCATCTTCTTCACTTCTCGAAGACTGGCATACCGTCTCGATTCACCTTTACCAGTGAAAGTGCTTTTCAACTGGTTGATAAAACAACAGGAACTAAGAGATGCATCACAAGAAAAACAGATAGCGACACACAGCTCATACTTACTGGTAATTGTACGATTGACCAATGGTTTTACAACAGTACTAGCCGTCATTTACGAGACGTTAAAGCGCCTAATCGTGAACAGGAATGCTTCAGTCCTTGGGAATATCGCGAAAGATTACCAGCTGATCTTGAATTTACTCCTGGCTTATCGGCTTGTTCTAAGTGGAACCAAGTCATCATAGAAGCTCCTGAGGATGTCACCTATCAGATTGAATCTTTAGAATATGGCTATGTACATCATTATGGCCAATATGGCAACTTGgattttcttcaattttccAAAACTGACACTCCAGCTGAGTTTACATTTACGACAGAAAATGCCCTTCAGCTGGTAGATAGGGCAAAAACATCTAAGAAATGTATCACAAGAACGACAGATAAACAGCTGATACTCACTGATAACTGCACGCTTGACCAATGGGATTACAACTCCACTAACCGTCGTTTACAAGATATGACAGCACCTGATCAGGAATGTTTGAGTCCGTTGGACTTTCGCAATAAACAACCGTCTGACCTTAACTTTGCAACTGGTTTGTTACCTTGTTCTCACTGGAACAAAATGGTCTTGCATGCTGgAAGAAAACCAGGTTTTACCCCACACAAACCGGGTGGCAATTCAGAGGACAGTTCAAACACCAGTTCTATCGCAGCCGGAGTATCTGGGGGACTAGTTTTCTTAACAATTATCGCTGTTATtacaatttttgtgagaaaaaGGAACAAGAATAAACGTGCTGCAAGAGCAGAAATCCACCAGATACATGACATCGGCAGCCCGATTCATATACCCGCTCCTGTATCACCGTCTGGTGAATGCCTTTGGGAAATGGACAGCGCGAATGATATCTTAGTGGAACCACTAGAGCTTTCTTACGTAAAGGTTTTAGAAATTTGGGACATTCCGCCAGGCAATCTGAAGGTCCTGGATCAGAAACTGGGAGGCGGACAGTTTGGAATTGTTAAAAAAGGATTGTTAGCAGGAAAGGATGGCGATTTTGAAGTTGTTGCCGTTAAAATGGTGAAAGAAAATGCAAAAGAATCTGATATGGACGATTTGAAGGCGGAATTGACTctcttaaaaaaaataaatcgaGAACCTCATCCAAATGTAATAAGATTGGTCGGAAGTTGTTCGATAGAAGGAAAGTTACATGTTATCACAGAGTTTTGCCCTGGTGGGAACCTGCGACAGTTTCTCATTAAGACCAGAGTCAGCTGTCGGGAAGACGTGTCAAAGAATATTTATACGAGCATGATGTCGACATTGAACTGTTTTGAACTCTTACAAATTGCTCTTGATATTGCAAATGGAATGGTTCACCTTGCTTCTCAGAAGTTGGTTCATCGCGATCTAGCTGCCAGGAACATTCTCATGGGTGAAAATAATACAGCTAAAGTTTCTGATTTTGGTTTGGCAAGGGATATTAAAGGAGCAGAGGAATATTTAAGAAACAATCAAAATTTACTTCCCATAAAATGGATGGCATTAGAAAGCCTGCTTTATGGTCGTTTTACAACGGCAAGTGACGTCTGGAGCTATGGTGTTCTTTTTCACGAAATCGTTACTTTAGGAGAAGAGCCTTATAAGAACATTTCTCCACAAGTCATTGTTGCCCACCTTGGATCTGGATGTCGGATGTCCCAACCACCACATTGTCCTGACGAATTGTAA

Transcript

BRAKERXEIT00000014458

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P07949	Proto-oncogene tyrosine-protein kinase receptor Ret OS=Homo sapiens OX=9606 GN=RET PE=1 SV=3
P35546	Proto-oncogene tyrosine-protein kinase receptor Ret OS=Mus musculus OX=10090 GN=Ret PE=1 SV=2
G3V9H8	Proto-oncogene tyrosine-protein kinase receptor Ret OS=Rattus norvegicus OX=10116 GN=Ret PE=1 SV=1

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07714 all species →	PK_Tyr_Ser-Thr	Protein tyrosine and serine/threonine kinase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR008266 all species →	Active_site	Tyrosine-protein kinase, active site	Interproscan
IPR044912 all species →	Homologous_superfamily	Epidermal growth factor receptor, juxtamembrane domain	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR050122 all species →	Family	Receptor Tyrosine Kinase	Interproscan
IPR001245 all species →	Domain	Serine-threonine/tyrosine-protein kinase, catalytic domain	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan
IPR020635 all species →	Domain	Tyrosine-protein kinase, catalytic domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24416 all species →	TYROSINE-PROTEIN KINASE RECEPTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0004714 all species →	Molecular Function	transmembrane receptor protein tyrosine kinase activity	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007169 all species →	Biological Process	cell surface receptor protein tyrosine kinase signaling pathway	Interproscan
GO:0007275 all species →	Biological Process	multicellular organism development	Interproscan
GO:0033674 all species →	Biological Process	positive regulation of kinase activity	Interproscan
GO:0043235 all species →	Cellular Component	receptor complex	Interproscan
GO:0004713 all species →	Molecular Function	protein tyrosine kinase 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

No KEGG orthology assignment for BRAKERXEIP00000014458.1.

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 →