Gene detail

Detailed information of OS493_033577-T1 in Lophelia pertusa

Genomic Location: scaffold_268:194967...205451
NR annotation: KAJ7370231.1, Voltage-dependent calcium channel subunit alpha-2/delta-4 [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
P13806	Voltage-dependent calcium channel subunit alpha-2/delta-1 OS=Oryctolagus cuniculus OX=9986 GN=CACNA2D1 PE=1 SV=1
O08532	Voltage-dependent calcium channel subunit alpha-2/delta-1 OS=Mus musculus OX=10090 GN=Cacna2d1 PE=1 SV=1
P54289	Voltage-dependent calcium channel subunit alpha-2/delta-1 OS=Homo sapiens OX=9606 GN=CACNA2D1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000969 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08399 all species →	VWA_N	VWA N-terminal	Family	Interproscan
PF00092 all species →	VWA	von Willebrand factor type A domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051173 all species →	Family	Voltage-dependent calcium channel subunit alpha-2/delta	Interproscan
IPR036465 all species →	Homologous_superfamily	von Willebrand factor A-like domain superfamily	Interproscan
IPR013608 all species →	Domain	VWA N-terminal	Interproscan
IPR002035 all species →	Domain	von Willebrand factor, type A	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10166 all species →	VOLTAGE-DEPENDENT CALCIUM CHANNEL SUBUNIT ALPHA-2/DELTA-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005245 all species →	Molecular Function	voltage-gated calcium channel activity	Interproscan
GO:0005891 all species →	Cellular Component	voltage-gated calcium channel complex	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_033577-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_033577-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

107TPM > 0

7Conditions

29.7Max TPM

8.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.00	19.12
polyp at pH7 6	18	16	7.48	12.38
coral polyp · control treatment	16	16	10.40	29.73
coral polyp · oil and dispersant treatment	16	16	7.24	11.92
coral polyp · oil treatment	16	16	9.36	16.72
coral polyp · dispersant treatment	16	16	8.82	19.47
Polyp	10	9	4.85	13.78

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.03
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.82
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.87
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.87
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.46
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.01
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.25
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.22
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.32
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.17
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.73
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.78
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.74
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.33
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.38
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.29
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.45
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.92
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.27
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.48
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.03
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.90
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.19
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.05
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.08
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.88
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.72
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.68
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.76
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.96
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.28
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.94
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.86
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.42
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.65
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.28
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.12
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.28
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.23
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.12
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.78
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.91
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.42
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.21
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.94
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.