Gene detail

Detailed information of OS493_022291-T1 in Lophelia pertusa

Genomic Location: scaffold_90:1343824...1350375
NR annotation: KAJ7330676.1, Glypican-3 [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)	OG0009523 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01153 all species →	Glypican	Glypican	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001863 all species →	Family	Glypican	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10822 all species →	GLYPICAN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0009966 all species →	Biological Process	regulation of signal transduction	Interproscan
GO:0009986 all species →	Cellular Component	cell surface	Interproscan
GO:0016477 all species →	Biological Process	cell migration	Interproscan
GO:0062023 all species →	Cellular Component	collagen-containing extracellular matrix	Interproscan
GO:0090263 all species →	Biological Process	positive regulation of canonical Wnt signaling pathway	Interproscan
GO:1905475 all species →	Biological Process	regulation of protein localization to 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K08111	GPC5; glypican 5	-	Glycosylphosphatidylinositol (GPI)-anchored proteins	ko00537	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_022291-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

109TPM > 0

7Conditions

74.7Max TPM

20.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.27	25.11
polyp at pH7 6	18	18	17.19	30.03
coral polyp · control treatment	16	16	31.83	74.66
coral polyp · oil and dispersant treatment	16	16	21.83	54.78
coral polyp · oil treatment	16	16	17.92	51.29
coral polyp · dispersant treatment	16	16	28.18	53.56
Polyp	10	9	8.70	19.90

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.11
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.14
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.93
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.73
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.31
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.49
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.76
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.34
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.17
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.30
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.54
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.82
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.03
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.61
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.31
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.98
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.65
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.54
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.39
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.97
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.94
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.20
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.84
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.95
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.11
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.49
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.01
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.23
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.89
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.20
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.28
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.50
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.90
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.10
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.78
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.09
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.68
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.67
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.15
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.46
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.95
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.74
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.04
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.29
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.78
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.78
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.98
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.95
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.83
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.05
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.85
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.11
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.90
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.74
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.98
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.71
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.29
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.19
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.51
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.84
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.72
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.94
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.11
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.63
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.43
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.