Gene detail

Detailed information of OS493_039569-T1 in Lophelia pertusa

Genomic Location: scaffold_1267:3862...5968
NR annotation: KAJ7388140.1, Protein kinase C conserved region 2 (CalB), partial [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
Q9R0Q1	Synaptotagmin-like protein 4 OS=Mus musculus OX=10090 GN=Sytl4 PE=1 SV=1
Q8VHQ7	Synaptotagmin-like protein 4 OS=Rattus norvegicus OX=10116 GN=Sytl4 PE=1 SV=1
Q96C24	Synaptotagmin-like protein 4 OS=Homo sapiens OX=9606 GN=SYTL4 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000239 (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
IPR001565 all species →	Domain	Synaptotagmin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45716 all species →	BITESIZE, ISOFORM I	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006887 all species →	Biological Process	exocytosis	Interproscan
GO:0042043 all species →	Molecular Function	neurexin family protein binding	Interproscan
GO:0070382 all species →	Cellular Component	exocytic vesicle	Interproscan
GO:0016020 all species →	Cellular Component	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_039569-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_039569-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

96TPM > 0

7Conditions

10.1Max TPM

2.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	3.49	6.60
polyp at pH7 6	18	17	3.76	6.55
coral polyp · control treatment	16	15	2.73	10.07
coral polyp · oil and dispersant treatment	16	12	1.79	7.26
coral polyp · oil treatment	16	14	1.97	3.30
coral polyp · dispersant treatment	16	12	1.42	3.18
Polyp	10	9	1.51	3.01

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	-	6.60
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.32
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.48
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.41
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.22
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.17
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.94
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.14
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.59
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.51
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.51
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.05
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.73
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.46
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.15
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.99
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.07
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.94
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.05
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.62
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.54
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.72
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.17
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.05
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.64
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.03
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.30
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.39
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.93
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.92
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.01
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.26
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.22
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.80
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR16705969	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
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.01
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.21
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.66
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.54
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.04
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.80
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.