Gene detail

Detailed information of OS493_011531-T1 in Lophelia pertusa

Genomic Location: scaffold_29:2204238...2207581
NR annotation: KAJ7363249.1, hypothetical protein OS493_011531 [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
Q0VGK3	Glycerate kinase OS=Rattus norvegicus OX=10116 GN=Glyctk PE=1 SV=1
Q08BL7	Glycerate kinase OS=Danio rerio OX=7955 GN=glyctk PE=2 SV=1
Q2KJF7	Glycerate kinase OS=Bos taurus OX=9913 GN=GLYCTK PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007675 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13660 all species →	DUF4147	Domain of unknown function (DUF4147)	Domain	Interproscan
PF05161 all species →	MOFRL	MOFRL family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037035 all species →	Homologous_superfamily	Glycerate kinase-like, C-terminal domain superfamily	Interproscan
IPR025286 all species →	Domain	MOFRL-associated domain	Interproscan
IPR038614 all species →	Homologous_superfamily	Glycerate kinase, N-terminal domain superfamily	Interproscan
IPR039760 all species →	Family	MOFRL domain-containing protein	Interproscan
IPR007835 all species →	Domain	MOFRL domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12227 all species →	GLYCERATE KINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0008887 all species →	Molecular Function	glycerate kinase 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
K11529	gck, gckA, GLYCTK; glycerate 2-kinase	EC:2.7.1.165	Glycine, serine and threonine metabolism	ko00260	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_011531-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

18.6Max TPM

6.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.57	8.80
polyp at pH7 6	18	18	7.31	11.45
coral polyp · control treatment	16	16	7.19	18.60
coral polyp · oil and dispersant treatment	16	16	4.92	11.21
coral polyp · oil treatment	16	16	5.85	8.65
coral polyp · dispersant treatment	16	16	3.15	5.83
Polyp	10	10	7.94	10.82

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	-	8.80
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.33
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.94
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.81
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.06
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.01
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.97
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.30
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.09
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.99
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.47
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.45
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.27
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.34
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.82
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.50
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.33
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.02
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.84
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.76
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.07
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.45
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.99
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.67
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.49
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.86
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.15
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.62
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.01
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.67
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.83
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705990	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	11.21
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.43
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.19
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.87
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.85
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.56
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.52
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.49
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.85
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.72
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.56
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.33
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.10
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.91
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.33
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.77
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.83
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.82
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.69
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.67
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.43
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.84
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.39
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.82
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.21
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.97
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.72
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.33
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.49
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.02

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.