Gene detail

Detailed information of OS493_020880-T1 in Lophelia pertusa

Genomic Location: scaffold_78:1007471...1011968
NR annotation: KAJ7331177.1, Synaptogyrin-1 [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
O43759	Synaptogyrin-1 OS=Homo sapiens OX=9606 GN=SYNGR1 PE=1 SV=2
Q62876	Synaptogyrin-1 OS=Rattus norvegicus OX=10116 GN=Syngr1 PE=1 SV=1
O55100	Synaptogyrin-1 OS=Mus musculus OX=10090 GN=Syngr1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007282 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01284 all species →	MARVEL	Membrane-associating domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008253 all species →	Domain	Marvel domain	Interproscan
IPR016579 all species →	Family	Synaptogyrin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10838 all species →	SYNAPTOGYRIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030672 all species →	Cellular Component	synaptic vesicle membrane	Interproscan
GO:0031594 all species →	Cellular Component	neuromuscular junction	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_020880-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_020880-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

66.5Max TPM

30.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.49	30.54
polyp at pH7 6	18	18	24.47	38.86
coral polyp · control treatment	16	16	40.66	66.53
coral polyp · oil and dispersant treatment	16	16	41.28	53.49
coral polyp · oil treatment	16	16	29.98	48.15
coral polyp · dispersant treatment	16	16	33.27	49.29
Polyp	10	10	18.81	32.58

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	-	30.54
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.74
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.28
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.27
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.73
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.85
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.45
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.52
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.62
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.93
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.51
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.93
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.75
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.91
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.27
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.50
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.65
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.14
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.72
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.34
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.38
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.63
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.56
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.62
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.04
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.45
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.09
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.53
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.59
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.49
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.19
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.14
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.11
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.26
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.13
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.14
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.30
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.55
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.65
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.35
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.64
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.74
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.94
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.87
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.58
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.29
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.82
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.51
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.55
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.66
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.18
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.71
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	32.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.22
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	20.11
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.74
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	17.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.06
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.45
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.27

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.