Gene detail

Detailed information of OS493_003481-T1 in Lophelia pertusa

Genomic Location: scaffold_7:2066339...2066701
NR annotation: KAJ7393815.1, hypothetical protein OS493_003481 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0011243 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05835 all species →	Synaphin	Synaphin protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008849 all species →	Family	Synaphin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16705 all species →	COMPLEXIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000149 all species →	Molecular Function	SNARE binding	Interproscan
GO:0006836 all species →	Biological Process	neurotransmitter transport	Interproscan
GO:0019905 all species →	Molecular Function	syntaxin binding	Interproscan
GO:0031201 all species →	Cellular Component	SNARE complex	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_003481-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_003481-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

113.7Max TPM

40.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	38.71	59.55
polyp at pH7 6	18	18	43.00	80.96
coral polyp · control treatment	16	16	49.96	113.69
coral polyp · oil and dispersant treatment	16	16	40.92	86.07
coral polyp · oil treatment	16	16	41.29	60.82
coral polyp · dispersant treatment	16	16	23.10	44.12
Polyp	10	10	48.92	80.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.55
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.71
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.72
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.80
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.13
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.98
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.62
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.21
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.85
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.79
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	80.96
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.35
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.53
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.30
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.95
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.91
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.41
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.24
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.02
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.24
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.64
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.34
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.11
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.69
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.82
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.70
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.35
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.35
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.15
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.07
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.68
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.57
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.34
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.83
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.29
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.27
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.82
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.60
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.70
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.38
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.46
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.05
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.54
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.93
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.26
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.62
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.75
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.18
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.32
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.87
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.12
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.92
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	80.18
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	76.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	62.74
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	56.72
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	50.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	39.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	35.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.26
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	28.88
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	28.70

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.