Gene detail

Detailed information of OS493_020028-T1 in Lophelia pertusa

Genomic Location: scaffold_72:685355...689832
NR annotation: KAJ7331245.1, hypothetical protein OS493_020028 [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
Q16563	Synaptophysin-like protein 1 OS=Homo sapiens OX=9606 GN=SYPL1 PE=1 SV=1
P20488	Synaptophysin OS=Bos taurus OX=9913 GN=SYP PE=1 SV=3
P08247	Synaptophysin OS=Homo sapiens OX=9606 GN=SYP PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006936 (this species only) · gene tree & orthology

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR001285 all species →	Family	Synaptophysin/synaptoporin	Interproscan
IPR008253 all species →	Domain	Marvel domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10306 all species →	SYNAPTOPHYSIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008021 all species →	Cellular Component	synaptic vesicle	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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_020028-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_020028-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

107TPM > 0

7Conditions

75.3Max TPM

23.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.81	19.01
polyp at pH7 6	18	16	10.63	17.87
coral polyp · control treatment	16	16	34.74	75.31
coral polyp · oil and dispersant treatment	16	16	34.62	66.55
coral polyp · oil treatment	16	16	29.40	53.56
coral polyp · dispersant treatment	16	16	32.53	60.88
Polyp	10	9	9.41	21.96

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	-	19.01
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.20
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.63
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.33
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.17
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.53
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.92
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.80
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.30
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.30
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.15
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.43
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.20
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.87
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.32
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.87
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.77
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.71
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.89
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.89
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.01
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.40
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.17
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.82
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.73
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.07
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.09
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.45
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.24
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.48
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.10
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.38
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.55
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.75
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.89
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.55
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.93
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.88
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.78
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.52
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.56
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.29
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.04
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.84
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.54
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.16
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.05
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.53
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.21
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.23
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.88
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.52
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.57
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.43
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.05
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.04
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.69
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.39
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.83
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.27
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.94
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.04
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.96
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.85
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.95
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.77
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.12
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.41
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.