Gene detail

Detailed information of OS493_039825-T1 in Lophelia pertusa

Genomic Location: scaffold_1472:8214...14287
NR annotation: KAJ7381659.1, Syntaxin-binding protein 5 [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
Q9WU70	Syntaxin-binding protein 5 OS=Rattus norvegicus OX=10116 GN=Stxbp5 PE=1 SV=1
Q8K400	Syntaxin-binding protein 5 OS=Mus musculus OX=10090 GN=Stxbp5 PE=1 SV=3
Q5T5C0	Syntaxin-binding protein 5 OS=Homo sapiens OX=9606 GN=STXBP5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004407 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00957 all species →	Synaptobrevin	Synaptobrevin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042855 all species →	Domain	v-SNARE, coiled-coil homology domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10241 all species →	LETHAL 2 GIANT LARVAE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0017157 all species →	Biological Process	regulation of exocytosis	Interproscan
GO:0019905 all species →	Molecular Function	syntaxin binding	Interproscan
GO:0031201 all species →	Cellular Component	SNARE complex	Interproscan
GO:0045159 all species →	Molecular Function	myosin II binding	Interproscan
GO:0050708 all species →	Biological Process	regulation of protein secretion	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_039825-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_039825-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

46.4Max TPM

19.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.85	46.37
polyp at pH7 6	18	18	24.36	44.88
coral polyp · control treatment	16	16	18.07	31.03
coral polyp · oil and dispersant treatment	16	16	14.54	28.10
coral polyp · oil treatment	16	16	18.38	28.68
coral polyp · dispersant treatment	16	16	9.86	18.67
Polyp	10	10	25.41	43.30

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.37
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.64
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.21
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.05
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.32
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.67
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.04
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.57
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.41
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.40
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.33
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.33
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.32
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.72
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.55
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.09
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.88
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.28
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.55
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.40
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.61
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.10
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.63
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.25
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.28
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.03
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.33
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.90
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.73
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.81
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.23
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.13
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.66
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.09
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.25
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.17
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.14
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.58
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.10
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.29
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.86
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.95
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.80
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.19
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.56
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.21
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.89
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.86
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.30
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.32
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.12
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.84
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.56
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.40
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.22
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.87
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.97
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.80
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	43.30
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	33.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	32.30
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	31.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.24
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	22.71
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.34
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.52

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.