Gene detail

Detailed information of OS493_039669-T1 in Lophelia pertusa

Genomic Location: scaffold_1349:6561...9238
NR annotation: KAJ7348185.1, Two pore calcium channel protein 2, partial [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
A0JMD4	Two pore channel protein 2 OS=Danio rerio OX=7955 GN=tpcn2 PE=2 SV=1
Q8NHX9	Two pore channel protein 2 OS=Homo sapiens OX=9606 GN=TPCN2 PE=1 SV=2
Q8BWC0	Two pore channel protein 2 OS=Mus musculus OX=10090 GN=Tpcn2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003846 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_039669-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR028798 all species →	Family	Two pore channel protein 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46768 all species →	TWO PORE CALCIUM CHANNEL PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005765 all species →	Cellular Component	lysosomal membrane	Interproscan
GO:0015280 all species →	Molecular Function	ligand-gated sodium channel activity	Interproscan
GO:0019722 all species →	Biological Process	calcium-mediated signaling	Interproscan
GO:0022832 all species →	Molecular Function	voltage-gated channel activity	Interproscan
GO:0075509 all species →	Biological Process	endocytosis involved in viral entry into host cell	Interproscan
GO:0097682 all species →	Molecular Function	intracellularly phosphatidylinositol-3,5-bisphosphate-gated monatomic cation channel 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 OS493_039669-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_039669-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

65TPM > 0

7Conditions

16.2Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.02	3.19
polyp at pH7 6	18	16	1.99	4.17
coral polyp · control treatment	16	5	2.22	12.52
coral polyp · oil and dispersant treatment	16	7	2.45	12.32
coral polyp · oil treatment	16	5	3.08	16.23
coral polyp · dispersant treatment	16	8	3.01	12.58
Polyp	10	7	1.39	5.27

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	-	3.19
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.83
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.60
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.87
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.85
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.71
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.25
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.10
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.68
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.13
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.08
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.01
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.96
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.94
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.78
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.77
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.24
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
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.98
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.01
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.00
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
SRR16705965	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
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	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
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.32
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.39
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705993	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
SRR16705995	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
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.10
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.29
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.25
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
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	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
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.50
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.39
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.55
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.40
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.16
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	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
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	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
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.27
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.02
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025710	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.