Gene detail

Detailed information of OS493_010474-T1 in Lophelia pertusa

Genomic Location: scaffold_25:2330162...2333441
NR annotation: KAJ7392814.1, hypothetical protein OS493_010474 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q16281	Cyclic nucleotide-gated channel alpha-3 OS=Homo sapiens OX=9606 GN=CNGA3 PE=1 SV=2
Q9JJZ8	Cyclic nucleotide-gated channel alpha-3 OS=Mus musculus OX=10090 GN=Cnga3 PE=1 SV=2
Q29441	Cyclic nucleotide-gated channel alpha-3 OS=Bos taurus OX=9913 GN=CNGA3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000765 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00520 all species →	Ion_trans	Ion transport protein	Family	Interproscan

InterPro

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

No KEGG orthology assignment for OS493_010474-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_010474-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

105TPM > 0

7Conditions

9.5Max TPM

3.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.42	3.67
polyp at pH7 6	18	15	1.60	4.50
coral polyp · control treatment	16	16	3.79	6.59
coral polyp · oil and dispersant treatment	16	15	3.38	6.05
coral polyp · oil treatment	16	16	3.86	5.92
coral polyp · dispersant treatment	16	16	3.37	9.51
Polyp	10	9	2.61	6.67

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.67
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.10
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.71
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.37
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.98
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.75
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.50
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.73
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.25
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.83
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.62
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.09
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.05
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.02
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.59
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.41
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.35
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.09
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.88
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.41
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.56
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.61
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.05
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.15
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.65
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.36
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.04
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.71
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.35
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.18
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.09
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.03
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.25
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.92
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.73
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.91
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.38
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.98
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.92
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.74
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.22
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.85
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.05
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.50
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.94
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.61
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.43
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.78
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.60
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.