Gene detail

Detailed information of OS493_003624-T1 in Lophelia pertusa

Genomic Location: scaffold_7:3794363...3800729
NR annotation: KAJ7393955.1, hypothetical protein OS493_003624 [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
Q9R283	Short transient receptor potential channel 2 OS=Rattus norvegicus OX=10116 GN=Trpc2 PE=2 SV=2
Q9R244	Short transient receptor potential channel 2 OS=Mus musculus OX=10090 GN=Trpc2 PE=2 SV=2
O62826	Short transient receptor potential channel 2 homolog OS=Bos taurus OX=9913 GN=TRPC2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000221 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00622 all species →	SPRY	SPRY domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002153 all species →	Family	Transient receptor potential channel, canonical	Interproscan
IPR003877 all species →	Domain	SPRY domain	Interproscan
IPR043136 all species →	Homologous_superfamily	B30.2/SPRY domain superfamily	Interproscan
IPR044736 all species →	Domain	Ran-binding protein Vid30/RanBPM/SPLA, SPRY domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10117 all species →	TRANSIENT RECEPTOR POTENTIAL CHANNEL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005262 all species →	Molecular Function	calcium channel activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0070588 all species →	Biological Process	calcium ion transmembrane transport	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0015279 all species →	Molecular Function	store-operated calcium channel activity	Interproscan
GO:0034703 all species →	Cellular Component	cation channel complex	Interproscan
GO:0051480 all species →	Biological Process	regulation of cytosolic calcium ion concentration	Interproscan
GO:0070679 all species →	Molecular Function	inositol 1,4,5 trisphosphate 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 OS493_003624-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_003624-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

73TPM > 0

7Conditions

18.6Max TPM

1.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	1.29	4.84
polyp at pH7 6	18	10	2.89	18.62
coral polyp · control treatment	16	12	2.65	17.20
coral polyp · oil and dispersant treatment	16	12	1.52	5.55
coral polyp · oil treatment	16	12	1.77	7.47
coral polyp · dispersant treatment	16	11	1.54	18.29
Polyp	10	4	0.16	0.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.36
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.37
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.10
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.90
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.67
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.61
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.42
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.38
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.62
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.36
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.66
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.77
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.38
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.79
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.12
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.26
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.22
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.09
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.47
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.55
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.44
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.03
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.17
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.06
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.87
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.69
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.21
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.05
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.34
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.27
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.