Gene detail

Detailed information of OS493_002329-T1 in Lophelia pertusa

Genomic Location: scaffold_5:629813...632014
NR annotation: KAJ7365621.1, Extended synaptotagmin-3 [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
O00750	Phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta OS=Homo sapiens OX=9606 GN=PIK3C2B PE=1 SV=2
Q25378	Protein kinase C OS=Lytechinus pictus OX=7653 GN=PKC1 PE=2 SV=1
Q9R0Q1	Synaptotagmin-like protein 4 OS=Mus musculus OX=10090 GN=Sytl4 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001220 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00168 all species →	C2	C2 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR051634 all species →	Family	Extended Synaptotagmin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45761 all species →	EXTENDED SYNAPTOTAGMIN-LIKE PROTEIN 2, ISOFORM C	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005544 all species →	Molecular Function	calcium-dependent phospholipid binding	Interproscan
GO:0008429 all species →	Molecular Function	phosphatidylethanolamine binding	Interproscan
GO:0031210 all species →	Molecular Function	phosphatidylcholine binding	Interproscan
GO:0031227 all species →	Cellular Component	obsolete intrinsic component of endoplasmic reticulum membrane	Interproscan
GO:0031234 all species →	Cellular Component	extrinsic component of cytoplasmic side of plasma membrane	Interproscan
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	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_002329-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_002329-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

145.4Max TPM

41.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	45.03	74.57
polyp at pH7 6	18	18	49.56	82.65
coral polyp · control treatment	16	16	41.07	61.15
coral polyp · oil and dispersant treatment	16	16	39.44	95.06
coral polyp · oil treatment	16	16	56.81	145.40
coral polyp · dispersant treatment	16	16	30.16	51.89
Polyp	10	10	17.02	33.61

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	-	74.57
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.18
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.39
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.06
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.81
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.55
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.67
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.59
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.56
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.34
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.02
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.37
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.84
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.88
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.26
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.45
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.57
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.23
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.25
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.62
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.22
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.76
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.37
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.20
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.15
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.88
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.31
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.15
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.06
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.16
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.86
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.49
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.95
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	95.06
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.08
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.61
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.36
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.61
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.27
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.80
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.50
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	145.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.70
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.33
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.26
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.77
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.14
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.21
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.99
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.93
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.68
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.29
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.08
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	33.61
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	27.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.92
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.08
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.93
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.94
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.97
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.91
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.65

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.