Gene detail

Detailed information of BRAKERYMEP00000003235.1 in Astreopora myriophthalma

Genomic Location: BLFK01000093.1:1570382...1581795
NR annotation: XP_029196985.2, transient receptor potential cation channel subfamily V member 6-like isoform X1 [Acropora millepora]
Species Astreopora myriophthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERYMET00000003235

ATGCTCGGATTAGGTCCCCCGCCAGGTGAGGGCCAAGATGAAGCGTGGAAGCGCCAGACACTTGGGCGAATAGAAAACAAACTCTACACTTTCGTGGACCTTAAAGGCTCGGCAAACAATACCGAGCTGGTTAAAATCTGGAAGGAACAGAATGGCAAGGCAGGCTTCCTTAGAAAACTTCAACAGGACAAGGTTCTTCTACCTTACTTGTACGAGCATGGGGAAGGAAAAGAGGTTTCTGTCGAGGAGGTGAAACGATGGCGAGAGGAGAGGGCAACCGAGTTCGATAAAAACCACTACGATTTAGAGCATATTCCCAGCAAGGCCTGCTGGGCACTGGACCACCGTGGGGCCCTGGGAGAAACAGCACTCCATTTGTGTTTCCTCAGCAACAACAGGATGATGACTGACATGGCCCGGGCTCTACTGGAGCTATACCCTGCGATGGCAGTGGACCAGTACGAGGGACTCGAGTATTACGGGGAGACATCTGTACACATTGCGATAGTGAACGGAGATCTGAATTCATTAAAGCTTCTGATTAGCAAATATAGTGCGGATGTCCACGCACGCGCACGAGGAAAATTCTTCATGCCAGAGGACAGCAAGGACAAGTTGAAACAGGTCACCGACTACGACGGTTATGCCTATTACGGTGAATACCCAGCTGCCTTTGCCGCTTGCTTTGACAACAAGAAAATGTACGACTTCCTCATAAAGAAAGGAGCAGATCCAAACAAACAGGACACGTTCGGGAACACTGTGCTACACCTGTGTGTTATACACAACAAAATTGACATGTATTTTCATGCCACTCAAAGAAAACACAAGATTCGCGCCAATACAACTGTCAGGAACAACCAGCGACTCACACCACTTACGCTCGCCGCCAAGCTGGGAAGGAAAGAGATGTTTCATGAAATTCTTGAATTCGAAAGTACGGAATACTGGTCCTACGGGCGCATGATTTGTTCAGGATACCCGCTGGACGGTTTGGATTCAGTTGACAAGAATGGAAAATCCGATGAACATTCAGCGTTATTAATTACGATGAATGGAAATACAAGCGATCACTTGGACATGTTAAACAGTGGCATCATCTATCGACTTCTGGAAGAAAAGTGGAAAGCTTTTGCTCGGGGCAAGTTTTACAGACGTCTGTTATTCGCCGTCCTGTATCtattgtttttcagtttgtcTATTTACTATCGTCCACGAGATTTAGAATTTTTGAGAATAGAGACCAACGAGGAACTAtTTCGTGTCGTAGCTGAGAGCATTACAGTTCTGGGAGCAATAATCTATTTGGTGCTGGAGATCAAAGATGTCTTAATTAGTCAAGGAATCAAGTCTCAACTAAACAGTTTGCGTGACGCTCCTGGTAAGGCCATCTTCCTAATTTCCTGCATTCTCGTCATCCTTGCGTTACCATGTCGTTACCTTGGAAGCAGAGACGCGGAGACAGCTATGCTGATTCTCGCTGCTCCGATGGCTTGGTGCTATCTCCTATTTTTCTGCAGAGGGTTTGAAGCAATTGGTCCTTTTGTCGATATGATATACAGGATGTGTGCGGGGGACATGTCCAGATTCTTCGTTATATACATCATTTATCTTTTGGGGCTCGCACAAGCATTCTTAAACGTGATGGGAGGAGTCGAGGGATACGAGAACGAAGGTTATACTGTTATGACCTTAATGCGCATGACATTTGGAGAGTTTGATTTTTTCTCCTTCGACAGGTCCCGGCATCCAGTGCTAgccaagttgttgtttttttacttcatgTTGTTTGTCACGGTTTTACTCATGAATATGTTGATCGCTATGATGGCCAACACTTACCAGAGTatATCAGATCGCTCAGAGAAAGAATGGAGAAGACAGTGGGCACAGATTATTATGGTCTTGGAACGCTCGGTCAAACCATCCGAATTGAAGAGGCTCCAAGATGAGTACTCGGTCAAAATGCCTCAAGAGGTAGCTGGGGAGAGAAGAAGAGGACTTATGGTGATAAAGAAAAGCAGTTTACCGAGCAAGGCGGATAAACGAAGGACGGCCATCTCGAATTGGCAGGTTCTGGGCAGTGACTCcataaaaaataaactgcaaGAGCAAGCAACGAAAAGCCACCTTCCAACAATAAGCATCTGA

Transcript

BRAKERYMET00000003235

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9H1D0	Transient receptor potential cation channel subfamily V member 6 OS=Homo sapiens OX=9606 GN=TRPV6 PE=1 SV=3
Q9R186	Transient receptor potential cation channel subfamily V member 6 OS=Rattus norvegicus OX=10116 GN=Trpv6 PE=1 SV=2
Q91WD2	Transient receptor potential cation channel subfamily V member 6 OS=Mus musculus OX=10090 GN=Trpv6 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002677 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF08016 all species →	PKD_channel	Polycystin cation channel	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR024862 all species →	Family	Transient receptor potential cation channel subfamily V	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR013122 all species →	Domain	Polycystin cation channel, PKD1/PKD2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10582 all species →	TRANSIENT RECEPTOR POTENTIAL ION CHANNEL PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005216 all species →	Molecular Function	monoatomic ion channel activity	Interproscan
GO:0005262 all species →	Molecular Function	calcium channel activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0098703 all species →	Biological Process	calcium ion import across plasma membrane	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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 BRAKERYMEP00000003235.1.

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 Astreopora myriophthalma 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 Astreopora myriophthalma, 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 →