Gene detail

Detailed information of OS493_009921-T1 in Lophelia pertusa

Genomic Location: scaffold_24:758541...763182
NR annotation: KAJ7337069.1, Syntaxin-16 [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
O14662	Syntaxin-16 OS=Homo sapiens OX=9606 GN=STX16 PE=1 SV=3
Q8BVI5	Syntaxin-16 OS=Mus musculus OX=10090 GN=Stx16 PE=1 SV=3
Q9SUJ1	Syntaxin-43 OS=Arabidopsis thaliana OX=3702 GN=SYP43 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004500 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05739 all species →	SNARE	SNARE domain	Family	Interproscan
PF00804 all species →	Syntaxin	Syntaxin	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000727 all species →	Domain	Target SNARE coiled-coil homology domain	Interproscan
IPR006011 all species →	Domain	Syntaxin, N-terminal domain	Interproscan
IPR006012 all species →	Conserved_site	Syntaxin/epimorphin, conserved site	Interproscan
IPR045242 all species →	Family	Syntaxin	Interproscan
IPR010989 all species →	Homologous_superfamily	SNARE	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19957 all species →	SYNTAXIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005484 all species →	Molecular Function	SNAP receptor activity	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0000149 all species →	Molecular Function	SNARE binding	Interproscan
GO:0006906 all species →	Biological Process	vesicle fusion	Interproscan
GO:0012505 all species →	Cellular Component	endomembrane system	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0031201 all species →	Cellular Component	SNARE complex	Interproscan
GO:0048278 all species →	Biological Process	vesicle docking	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated 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_009921-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_009921-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

32.3Max TPM

17.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	18.85	25.96
polyp at pH7 6	18	18	20.92	29.64
coral polyp · control treatment	16	16	19.76	25.56
coral polyp · oil and dispersant treatment	16	16	15.74	22.94
coral polyp · oil treatment	16	16	20.18	26.88
coral polyp · dispersant treatment	16	16	12.14	21.48
Polyp	10	9	15.90	32.31

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.96
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.14
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.05
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.10
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.08
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.59
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.37
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.79
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.02
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.97
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.02
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.64
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.40
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.26
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.76
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.30
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.04
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.51
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.76
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.47
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.68
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.46
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.06
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.27
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.10
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.99
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.56
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.42
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.42
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.19
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.94
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.67
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.87
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.61
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.06
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.60
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.49
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.06
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.65
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.88
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.78
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.68
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.21
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.56
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.16
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.08
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.15
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.08
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.46
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.66
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.48
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.14
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.48
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.85
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.84
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.91
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.84
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.56
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.24
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.83
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.60
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.61
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	32.31
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	30.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.35
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.23
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.87
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.81
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.83
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.99
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.