Gene detail

Detailed information of OS493_030608-T1 in Lophelia pertusa

Genomic Location: scaffold_199:394877...413234
NR annotation: KAJ7389560.1, phosphoglycerate kinase [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
P00559	Phosphoglycerate kinase 1 OS=Equus caballus OX=9796 GN=PGK1 PE=1 SV=2
P00558	Phosphoglycerate kinase 1 OS=Homo sapiens OX=9606 GN=PGK1 PE=1 SV=3
Q60HD8	Phosphoglycerate kinase 1 OS=Macaca fascicularis OX=9541 GN=PGK1 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002961 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00162 all species →	PGK	Phosphoglycerate kinase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036043 all species →	Homologous_superfamily	Phosphoglycerate kinase superfamily	Interproscan
IPR015824 all species →	Homologous_superfamily	Phosphoglycerate kinase, N-terminal	Interproscan
IPR001576 all species →	Family	Phosphoglycerate kinase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11406 all species →	PHOSPHOGLYCERATE KINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004618 all species →	Molecular Function	phosphoglycerate kinase activity	Interproscan
GO:0006096 all species →	Biological Process	glycolytic process	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006094 all species →	Biological Process	gluconeogenesis	Interproscan
GO:0043531 all species →	Molecular Function	ADP binding	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_030608-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_030608-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

232.5Max TPM

57.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	46.81	78.19
polyp at pH7 6	18	18	50.49	74.14
coral polyp · control treatment	16	16	66.63	232.48
coral polyp · oil and dispersant treatment	16	16	79.09	223.01
coral polyp · oil treatment	16	16	61.32	149.65
coral polyp · dispersant treatment	16	16	50.21	80.76
Polyp	10	10	50.10	68.45

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	-	78.19
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.58
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.13
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.69
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.65
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.97
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.79
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.21
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.88
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.36
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.99
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.51
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.95
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.14
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.09
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.51
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.87
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.76
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.26
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.02
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.16
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.27
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	232.48
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.29
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.89
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.65
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.38
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.34
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.65
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.49
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.64
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	223.01
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	194.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	99.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.18
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.36
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.02
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.07
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.45
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.31
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	149.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.38
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.24
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.47
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.44
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.74
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.75
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.88
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.98
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.18
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.29
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.16
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.18
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.94
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	68.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	64.88
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	61.06
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	60.96
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	51.01
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	50.36
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	47.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	39.16
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	29.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	28.39

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.