Gene detail

Detailed information of OS493_009677-T1 in Lophelia pertusa

Genomic Location: scaffold_23:1518932...1520897
NR annotation: KAJ7363522.1, 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
Q96C24	Synaptotagmin-like protein 4 OS=Homo sapiens OX=9606 GN=SYTL4 PE=1 SV=2
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)	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
IPR001565 all species →	Domain	Synaptotagmin	Interproscan
IPR043567 all species →	Domain	Synaptotagmin-like 1-5, C2B domain	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
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_009677-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_009677-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

46.6Max TPM

19.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	18.99	37.74
polyp at pH7 6	18	18	16.70	32.26
coral polyp · control treatment	16	16	18.24	34.65
coral polyp · oil and dispersant treatment	16	15	17.65	36.47
coral polyp · oil treatment	16	16	21.38	46.57
coral polyp · dispersant treatment	16	16	24.70	43.26
Polyp	10	10	16.95	38.07

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	-	37.74
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.51
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.58
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.76
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.02
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.94
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.47
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.16
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.94
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.69
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.39
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.12
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.60
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.34
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.90
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.33
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.05
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.73
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.21
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.40
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.86
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.17
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.73
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.81
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.89
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.87
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.76
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.96
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.59
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.06
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.25
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.05
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.44
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.45
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.25
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.58
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.32
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.75
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.92
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.17
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.13
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.14
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.83
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.57
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.10
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.62
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.05
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.27
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.40
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.44
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.95
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.59
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.22
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.16
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.69
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.28
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.32
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	38.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.12
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	19.52
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.53
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.57
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.19
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.73
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.84

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.