Gene detail

Detailed information of OS493_012090-T1 in Lophelia pertusa

Genomic Location: scaffold_31:1646928...1647347
NR annotation: KAJ7392427.1, hypothetical protein OS493_012090 [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)	OG0011754 (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:0006836 all species →	Biological Process	neurotransmitter transport	Interproscan
GO:0019905 all species →	Molecular Function	syntaxin binding	Interproscan
GO:0000149 all species →	Molecular Function	SNARE 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_012090-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_012090-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

20.9Max TPM

7.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.84	14.57
polyp at pH7 6	18	18	8.74	18.00
coral polyp · control treatment	16	16	7.83	14.70
coral polyp · oil and dispersant treatment	16	16	7.21	15.01
coral polyp · oil treatment	16	16	7.67	13.46
coral polyp · dispersant treatment	16	16	3.95	7.73
Polyp	10	10	11.31	20.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.57
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.24
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.39
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.54
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.50
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.70
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.52
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.32
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.02
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.91
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.46
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.87
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.14
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.70
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.50
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.03
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.18
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.12
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.73
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.23
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.13
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.36
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.16
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.01
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.58
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.15
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.15
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.86
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.88
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.91
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.99
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.49
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.89
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.99
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.89
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.36
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.31
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.64
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.11
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.73
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.27
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.51
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.09
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.31
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.11
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.85
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.03
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.17
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.74
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.93
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.98
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.35

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.