Gene detail

Detailed information of OS493_018845-T1 in Lophelia pertusa

Genomic Location: scaffold_63:1443456...1452676
NR annotation: KAJ7379050.1, Two pore calcium channel protein 2 [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_018845-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_018845-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_018845-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

90TPM > 0

7Conditions

9.9Max TPM

2.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	1.69	3.74
polyp at pH7 6	18	12	2.03	5.69
coral polyp · control treatment	16	15	4.00	9.92
coral polyp · oil and dispersant treatment	16	14	3.15	7.89
coral polyp · oil treatment	16	15	3.12	7.31
coral polyp · dispersant treatment	16	14	4.23	7.80
Polyp	10	6	0.84	1.96

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.67
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.47
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.37
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.35
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.23
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.93
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.90
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.89
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.58
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.50
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.91
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.69
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.09
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.36
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.24
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.11
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.58
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
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
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	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
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.92
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.32
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.63
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.59
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.30
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.59
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.76
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.26
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.53
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.51
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.16
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.96
SRR16705977	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
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.31
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.98
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.49
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.47
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.09
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.74
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.43
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.81
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.93
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.82
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.62
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.40
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.15
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705953	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
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.82
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.26
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.94
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.74
SRR23025712	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.