Gene detail

Detailed information of OS493_001094-T1 in Lophelia pertusa

Genomic Location: scaffold_2:4506871...4520926
NR annotation: KAJ7387751.1, Alpha/beta hydrolase domain-containing protein 11 [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
Q8L636	Sodium/calcium exchanger NCL OS=Arabidopsis thaliana OX=3702 GN=NCL PE=2 SV=1
Q6K3R5	Sodium/calcium exchanger NCL2 OS=Oryza sativa subsp. japonica OX=39947 GN=NCL2 PE=2 SV=2
Q5QNI2	Sodium/calcium exchanger NCL1 OS=Oryza sativa subsp. japonica OX=39947 GN=NCL1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003989 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01699 all species →	Na_Ca_ex	Sodium/calcium exchanger protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004713 all species →	Family	Calcium/proton exchanger	Interproscan
IPR004837 all species →	Domain	Sodium/calcium exchanger membrane region	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31503 all species →	VACUOLAR CALCIUM ION TRANSPORTER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006812 all species →	Biological Process	monoatomic cation transport	Interproscan
GO:0006874 all species →	Biological Process	intracellular calcium ion homeostasis	Interproscan
GO:0008324 all species →	Molecular Function	monoatomic cation transmembrane transporter activity	Interproscan
GO:0015369 all species →	Molecular Function	calcium:proton antiporter activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0070588 all species →	Biological Process	calcium ion transmembrane transport	Interproscan
GO:0055085 all species →	Biological Process	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_001094-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_001094-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

69.3Max TPM

32.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	29.92	43.00
polyp at pH7 6	18	18	26.63	37.67
coral polyp · control treatment	16	16	36.11	59.52
coral polyp · oil and dispersant treatment	16	16	29.65	69.28
coral polyp · oil treatment	16	16	36.55	57.66
coral polyp · dispersant treatment	16	16	38.21	64.56
Polyp	10	10	31.49	51.85

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	-	43.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.95
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.62
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.47
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.18
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.49
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.46
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.48
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.07
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.30
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.16
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.57
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.67
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.57
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.87
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.98
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.32
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.76
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.72
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.34
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.83
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.82
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.12
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.91
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.02
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.28
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.21
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.82
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.03
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.44
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.64
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.28
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.75
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.03
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.84
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.53
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.73
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.25
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.45
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.21
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.22
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.74
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.83
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.18
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.56
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.87
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.83
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.15
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.45
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.06
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.83
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.31
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.09
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.88
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.77
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.98
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	51.85
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	43.89
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	43.16
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	42.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	34.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	33.42
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	20.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.41
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	15.04
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.59

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.