Gene detail

Detailed information of OS493_030118-T1 in Lophelia pertusa

Genomic Location: scaffold_189:659835...660337
NR annotation: KAJ7377305.1, Sarcoplasmic/endoplasmic reticulum calcium ATPase 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
P35316	Calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type OS=Artemia franciscana OX=6661 PE=2 SV=1
Q7PPA5	Calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type OS=Anopheles gambiae OX=7165 GN=SERCA PE=3 SV=5
Q292Q0	Calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type OS=Drosophila pseudoobscura pseudoobscura OX=46245 GN=SERCA PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001607 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08282 all species →	Hydrolase_3	haloacid dehalogenase-like hydrolase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR023214 all species →	Homologous_superfamily	HAD superfamily	Interproscan
IPR036412 all species →	Homologous_superfamily	HAD-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42861 all species →	CALCIUM-TRANSPORTING ATPASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005388 all species →	Molecular Function	P-type calcium transporter activity	Interproscan
GO:0006874 all species →	Biological Process	intracellular calcium ion homeostasis	Interproscan
GO:0015662 all species →	Molecular Function	P-type ion transporter activity	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0034220 all species →	Biological Process	monoatomic ion transmembrane transport	Interproscan
GO:0070588 all species →	Biological Process	calcium ion transmembrane transport	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_030118-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_030118-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

106TPM > 0

7Conditions

294.2Max TPM

55.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	23.29	47.07
polyp at pH7 6	18	17	32.10	51.09
coral polyp · control treatment	16	16	56.53	133.53
coral polyp · oil and dispersant treatment	16	16	124.11	218.85
coral polyp · oil treatment	16	16	48.17	89.44
coral polyp · dispersant treatment	16	14	80.04	294.21
Polyp	10	9	18.37	36.76

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.07
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.06
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.56
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.31
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.34
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.24
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.89
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.61
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.85
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.43
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.96
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.04
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.44
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.92
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.04
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.34
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.26
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.14
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	133.53
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.78
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.89
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.27
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.16
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.06
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.75
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.56
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	218.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	186.34
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	173.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	168.68
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	167.33
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	147.79
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	146.89
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	144.48
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.98
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.58
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.28
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.95
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.44
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.11
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.58
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.74
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.02
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.96
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.71
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	294.21
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.30
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	99.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.85
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	85.52
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	78.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.87
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.50
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.57
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
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	36.76
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	31.10
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.93
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	22.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.01
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.90
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.49
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.99
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.