Gene detail

Detailed information of OS493_003594-T1 in Lophelia pertusa

Genomic Location: scaffold_7:3482670...3489057
NR annotation: KAJ7393925.1, hypothetical protein OS493_003594 [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
Q7Z3S7	Voltage-dependent calcium channel subunit alpha-2/delta-4 OS=Homo sapiens OX=9606 GN=CACNA2D4 PE=1 SV=2
Q5RJF7	Voltage-dependent calcium channel subunit alpha-2/delta-4 OS=Mus musculus OX=10090 GN=Cacna2d4 PE=2 SV=1
Q9Z1L5	Voltage-dependent calcium channel subunit alpha-2/delta-3 OS=Mus musculus OX=10090 GN=Cacna2d3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010481 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08399 all species →	VWA_N	VWA N-terminal	Family	Interproscan
PF13768 all species →	VWA_3	von Willebrand factor type A domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002035 all species →	Domain	von Willebrand factor, type A	Interproscan
IPR036465 all species →	Homologous_superfamily	von Willebrand factor A-like domain superfamily	Interproscan
IPR013608 all species →	Domain	VWA N-terminal	Interproscan
IPR051173 all species →	Family	Voltage-dependent calcium channel subunit alpha-2/delta	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_003594-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_003594-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

13.9Max TPM

1.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	1.59	5.50
polyp at pH7 6	18	12	1.99	9.22
coral polyp · control treatment	16	15	1.15	4.43
coral polyp · oil and dispersant treatment	16	16	2.95	13.87
coral polyp · oil treatment	16	15	1.04	4.46
coral polyp · dispersant treatment	16	15	0.86	4.20
Polyp	10	5	0.14	0.38

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.50
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.88
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.53
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.63
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.41
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
SRR11359507	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
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.22
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.96
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.89
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.04
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.42
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
SRR11359503	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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.15
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.20
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.81
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.39
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.25
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.87
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.65
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.97
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.28
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.34
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.80
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.78
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.77
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.27
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.19
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.16
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.46
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.73
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.71
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.44
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.42
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.33
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.26
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.20
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.72
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.21
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.09
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.32
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.28
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.12
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	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.