Gene detail

Detailed information of OS493_028317-T1 in Lophelia pertusa

Genomic Location: scaffold_162:353982...368231
NR annotation: KAJ7326061.1, hypothetical protein OS493_028317 [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
Q24270	Voltage-dependent calcium channel type D subunit alpha-1 OS=Drosophila melanogaster OX=7227 GN=Ca-alpha1D PE=1 SV=2
Q01668	Voltage-dependent L-type calcium channel subunit alpha-1D OS=Homo sapiens OX=9606 GN=CACNA1D PE=1 SV=2
Q99246	Voltage-dependent L-type calcium channel subunit alpha-1D OS=Mus musculus OX=10090 GN=Cacna1d PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0021055 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08763 all species →	Ca_chan_IQ	Voltage gated calcium channel IQ domain	Domain	Interproscan
PF16885 all species →	CAC1F_C	Voltage-gated calcium channel subunit alpha, C-term	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050599 all species →	Family	Voltage-dependent calcium channel alpha-1 subunit	Interproscan
IPR014873 all species →	Domain	Voltage-dependent calcium channel, alpha-1 subunit, IQ domain	Interproscan
IPR031688 all species →	Domain	Voltage-gated calcium channel subunit alpha, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45628 all species →	VOLTAGE-DEPENDENT CALCIUM CHANNEL TYPE A SUBUNIT ALPHA-1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005891 all species →	Cellular Component	voltage-gated calcium channel complex	Interproscan
GO:0008331 all species →	Molecular Function	high voltage-gated calcium channel activity	Interproscan
GO:0098703 all species →	Biological Process	calcium ion import across plasma membrane	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_028317-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_028317-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

110TPM > 0

7Conditions

32.2Max TPM

9.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.30	32.19
polyp at pH7 6	18	18	9.20	19.82
coral polyp · control treatment	16	16	9.98	25.16
coral polyp · oil and dispersant treatment	16	16	5.46	11.09
coral polyp · oil treatment	16	16	8.56	18.26
coral polyp · dispersant treatment	16	16	10.40	22.96
Polyp	10	10	3.23	6.38

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.19
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.93
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.04
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.90
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.46
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.81
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.29
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.82
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.93
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.83
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.60
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.57
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.70
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.22
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.86
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.82
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.63
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.16
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.13
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.35
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.24
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.28
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.14
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.38
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.59
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.36
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.09
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.92
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.37
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.21
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.52
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.47
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.54
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.56
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.26
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.38
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.19
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.41
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.04
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.83
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.80
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.01
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.01
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.97
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.12
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.19
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.11
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.33
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.08
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.08
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.33
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.22

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.