Gene detail

Detailed information of ENSSYXP00000045315.1 in Micromussa lordhowensis

Genomic Location: chr5:34481231...34486542
NR annotation: XP_027047614.1, cyclic nucleotide-gated cation channel alpha-3-like [Pocillopora damicornis]
Species Micromussa lordhowensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSSYXT00000047694

ATGGAAAGACCAACTCAGCTTGCTTCAGATGACAGCTCCCTATCTCCAGGAAACCACGCCACAGATCAAATGGAGGCTGGTGGACCACAAATTCCCCGAGTGGTTATCGAATCCACTGGACAAACGCAATTTGCAGGCTCCGTTCTTAGAGTTTTGTCACTACAGAAATTCTACAAGAAAACCGGAAGAAGATCGCGAGACTCTTGGCTGGAGAGATATACTGGGACCTACCAAGACGACAAAGACTGGCGCCGACCTCTCATGCGCAGATCAGCTTCCAATTCTCCCCAAGTGCAGAGCCCTACATCAGAGGGGACGGGAAGCTCACGTGACACATCCGACGTGTTGCTTGACAAGACAGATCGCTGGCGTTGTCATTTTACCTTCGTCTTTGACCCTTCTGGTGACGTGTATTTCTTCTGGCTACTAACAGTCGTTCTCGGAATCTTGTACAACTACTGGACGATCATTTTCCGTGTGGCGTTTTTCGTACAAGAGCAGAAGTACGTGATCCCATTTATGGCTATCGATTACAGCTGCGATTTCATATTCCTGTTGGATATCATCGTACAGTTCCGTGCGGGCTACTTTGTAGATGGTAAGATAGTTACCGATACCAAGCAACTGGCCAAGCGTTACGTCACGTCGTTGGGTTTCTTTTTAGATTGTGTCTCCATCCTACCCACTGACTTACTCTTCCTGGTGCTTGGACCCAGACCTGCTCTGCGATTCGGTAGGCTCCTAAAGGCGCACCGGTTTTTCCTGTTTTGCGACCGCGTCGAGATCTACAGTGGTCGTCCTAAGCTGTTTAACCTGTTGAAACTCATCCATTACTTGTTCCTAATCATTCATTGGGTGGCCTGCCTGTACTTCCTCCTATCCTACCTGGAGGGATTTGGCGCGGACAAGTGGGTCCATCCATGTCTTAAGAACCAGTGGGCGGGGGTGGGTCCACAATACCTTTACAGCCTGTTTCGTTCGCTGGTATCCATGACGACAGTGGGTACAGGCAAACAAGTGGCGCCGCAGACCACAATGAGCCTGCTGTTCTGCATCTTCACGTATCTTTGTGGTGTGCTTATTTTTGCTACCATCGTCGGAAATGCAGCAGATATGATCGTGGACCTTAGAAGACACAGAGAGAAATATCACAGAAAGCTGGATGGAATGAAGCAGTACATCGCAGCCAATCAGCTGCCGATGGACTTGCAACGCCGCGTGATCCAGTGGTTCGATTTTGCCTGGCGATACAAGAAAGACATGAGCGAGGAAGAGCTATTTCAACAGCTCAACGACAACTTTCGGGCAGAAATCGCCATCCACGTCAACTTGGACACGTTAAAGAAGGTCAAGATGTTTGAACACTGTGACCCAAGCTTTCTGCGCGAACTCGTGTTGAAACTCAAGCCCATGCTCTGTTCACCCGgAGACCACGTCTGTCGTCAAGATGAAATTGGCCGAGAAATGTACATTGTCAATCAAGGGGAGTTAGAAGTTGTCGACAAGAGTGGAACAGTCTTAGCCAAACTATCAGCCGGACGACACTTCGGAGAAATAAGCATTCTTGACATGAAGGGAATTGGCAACCGTCGTACAGCTTCGGTCCGTTCCGTGGGCTTCTCGGATCTTTTCCGACTATCAAAGAAAGATCTGGAGGAGGTGATTGAGTACTACCCCGAAGTGAAGGACCAACTGGCGAAGATTGCTCGACAGACGTACGAGAAACAGAGAAGAGAGCGGCTTAATCAGACAGTGGATAATGAGAACAGGCATGatcgtatcactctacCAGAGGACTCTAGTCTGGAGAAAAATGACCCTCGTAGATGGCTTGTGGCAGACAAGGAAACCCTTAAACGTCGCCTGTCACTCATTGAAGCGAAAAATGAAGTCAAGTCTCTTGCAAACAAGTTCAGAAAAGAAAACGGTCATTCCGTAAATCCACGTGAAATAGTAGCTTCGATTGCTGAGCGCGCAAGATTAGAACGAGGCGACGAAGATTCCAGACAGATTATCAAAGAGTTTCTGGCGCAAGGCAGCGGCAAAAAAATGCCTAAGCGAAACACGGTGTCGCATGACAGCTTGATGGCAAACAGAAAACATTCCGAAGAAATCCCACATGAAAATTGCTTTAAGGACGCTTTATCTGCAGAGAATTGCACCATTGATCAGCTGAGGAAGAGTCAGAGAAAGTTCTTCAGCCGTCCACGATCTCGCACACAGGAATCAAAACCAGCTTCACCCACACGTAACGATATTCCACTGTTCACGTTTAAAGAAACTTTGTATAATGCCAACGACGACAAAGGAAAGGAGTCGCAGCCAAAAGAACTGGAATCGAACAGTGGTGCAGGAAGGATAATCAAGGCGCCAATCATTAAAAAAGGAATTCTAAAAAGAAGCAGCGCGGAAATACCTTTGCAATGGCGAGACAGTTCAGCCGAAACTTCATTCTGCGCGCTAGAAGATGTGAAAAGCGACCAGGAAAAGTCAAGAGCTACTGAGTCACGTAAAGAAGGAAGCGATAAGATTCCGAAGCAAAAGAATAAATTTAAGGTGCCGTTTTCGAAAGATCAACAGAAAGATGATAACAAAATCCTTCTTGCCACCCCAGAGAATAGCGAAATAGTGGAAGACTCGCCCAAATTGCATCGTGCTGCCAGCCGAATAAAAGCCACGGAGAAAGAACCATTCGCTAAAATAGAAATCAAGGTTGATTCAGATTTTGTCGCTCCGGAAAAACGGTGCGCGTGTCAACAGCAAGAAGAAGGTAAACAAATGAATGAGAGTTGTTCTGCTTCCGAGTGTGTATCCGCTGTTCAAGAAGTGGTACCGAGCGCAGGCTCATTTCCTCCAATGCCGCTGGTGATCAAACCCAATCAGGGAGAGGTAGTGATAATGAAATGA

Transcript

ENSSYXT00000047694

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9JJZ8	Cyclic nucleotide-gated channel alpha-3 OS=Mus musculus OX=10090 GN=Cnga3 PE=1 SV=2
Q16281	Cyclic nucleotide-gated channel alpha-3 OS=Homo sapiens OX=9606 GN=CNGA3 PE=1 SV=2
Q9ER33	Cyclic nucleotide-gated channel alpha-3 OS=Rattus norvegicus OX=10116 GN=Cnga3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000737 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00520 all species →	Ion_trans	Ion transport protein	Family	Interproscan
PF00027 all species →	cNMP_binding	Cyclic nucleotide-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018488 all species →	Conserved_site	Cyclic nucleotide-binding, conserved site	Interproscan
IPR014710 all species →	Homologous_superfamily	RmlC-like jelly roll fold	Interproscan
IPR005821 all species →	Domain	Ion transport domain	Interproscan
IPR000595 all species →	Domain	Cyclic nucleotide-binding domain	Interproscan
IPR050866 all species →	Family	Cyclic Nucleotide-Gated Cation Channel	Interproscan
IPR018490 all species →	Homologous_superfamily	Cyclic nucleotide-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45638 all species →	CYCLIC NUCLEOTIDE-GATED CATION CHANNEL SUBUNIT A	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005216 all species →	Molecular Function	monoatomic ion channel activity	Interproscan
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0005223 all species →	Molecular Function	intracellularly cGMP-activated cation channel activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0017071 all species →	Cellular Component	intracellular cyclic nucleotide activated cation channel complex	Interproscan
GO:0044877 all species →	Molecular Function	protein-containing complex binding	Interproscan
GO:0098655 all species →	Biological Process	monoatomic cation transmembrane transport	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
K04950	CNGA3; cyclic nucleotide gated channel alpha 3	-	Ion channels	ko04040	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 Micromussa lordhowensis 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 Micromussa lordhowensis, 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 →