Gene detail

Detailed information of OS493_033424-T1 in Lophelia pertusa

Genomic Location: scaffold_265:42042...54009
NR annotation: KAJ7389103.1, GDP-D-glucose phosphorylase 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
Q08CA1	GDP-D-glucose phosphorylase 1 OS=Danio rerio OX=7955 GN=gdpgp1 PE=2 SV=1
A8E5Y3	GDP-D-glucose phosphorylase 1 OS=Xenopus laevis OX=8355 GN=gdpgp1 PE=2 SV=1
Q0V9F1	GDP-D-glucose phosphorylase 1 OS=Xenopus tropicalis OX=8364 GN=gdpgp1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002100 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_033424-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR026506 all species →	Family	GDP-L-galactose/GDP-D-glucose phosphorylase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20884 all species →	GDP-D-GLUCOSE PHOSPHORYLASE 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006006 all species →	Biological Process	glucose metabolic process	Interproscan
GO:0080048 all species →	Molecular Function	GDP-D-glucose phosphorylase activity	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
K15630	VTC2; GDP-D-glucose phosphorylase	EC:2.7.7.78	Enzymes with EC numbers	-	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_033424-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

41.6Max TPM

17.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.42	19.75
polyp at pH7 6	18	18	16.10	22.75
coral polyp · control treatment	16	16	20.77	33.83
coral polyp · oil and dispersant treatment	16	16	24.55	41.62
coral polyp · oil treatment	16	16	18.58	29.90
coral polyp · dispersant treatment	16	16	16.47	29.56
Polyp	10	10	16.76	33.59

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	-	19.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.45
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.34
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.67
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.46
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.94
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.79
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.78
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.67
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.13
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.90
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.95
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.64
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.50
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.96
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.11
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.30
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.09
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.81
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.65
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.49
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.33
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.89
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.30
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.59
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.89
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.40
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.54
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.62
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.48
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.39
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.81
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.57
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.24
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.90
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.11
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.19
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.03
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.50
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.71
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.34
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.32
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.62
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.73
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.31
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.05
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.31
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.52
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.77
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.53
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.23
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.82
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.78
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.85
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	33.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	24.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	24.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	23.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	22.60
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.98
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.46
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.84
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.75

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.