Gene detail

Detailed information of OS493_009678-T1 in Lophelia pertusa

Genomic Location: scaffold_23:1520972...1529741
NR annotation: KAJ7363523.1, calcium ion-regulated exocytosis of neurotransmitter [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
Q8VHQ7	Synaptotagmin-like protein 4 OS=Rattus norvegicus OX=10116 GN=Sytl4 PE=1 SV=1
Q9R0Q1	Synaptotagmin-like protein 4 OS=Mus musculus OX=10090 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
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	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

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_009678-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_009678-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

109TPM > 0

7Conditions

33.5Max TPM

12.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.78	33.48
polyp at pH7 6	18	17	10.27	25.47
coral polyp · control treatment	16	16	11.83	19.93
coral polyp · oil and dispersant treatment	16	16	11.85	24.78
coral polyp · oil treatment	16	16	13.11	31.01
coral polyp · dispersant treatment	16	16	17.00	28.76
Polyp	10	10	8.06	21.42

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	-	33.48
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.14
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.58
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.95
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.59
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.25
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.69
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.12
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.38
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.47
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.63
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.30
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.79
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.39
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.35
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.93
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.11
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.31
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.88
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.57
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.05
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.39
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.92
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.76
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.03
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.58
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.45
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.97
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.58
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.30
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.26
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.83
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.45
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.25
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.45
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.63
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.16
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.60
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.57
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.94
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.54
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.88
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.94
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.16
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.97
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.55
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.49

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.