Gene detail

Detailed information of OS493_023789-T1 in Lophelia pertusa

Genomic Location: scaffold_107:426877...431725
NR annotation: KAJ7357658.1, Ribose-phosphate pyrophosphokinase 2 [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
Q5XGI0	Ribose-phosphate pyrophosphokinase 2 OS=Xenopus tropicalis OX=8364 GN=prps2 PE=2 SV=1
Q7ZXC9	Ribose-phosphate pyrophosphokinase 2 OS=Xenopus laevis OX=8355 GN=prps2 PE=2 SV=1
Q2HJ58	Ribose-phosphate pyrophosphokinase 1 OS=Bos taurus OX=9913 GN=PRPS1 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001449 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14572 all species →	Pribosyl_synth	Phosphoribosyl synthetase-associated domain	Domain	Interproscan
PF13793 all species →	Pribosyltran_N	N-terminal domain of ribose phosphate pyrophosphokinase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029057 all species →	Homologous_superfamily	Phosphoribosyltransferase-like	Interproscan
IPR005946 all species →	Family	Ribose-phosphate pyrophosphokinase	Interproscan
IPR000836 all species →	Domain	Phosphoribosyltransferase domain	Interproscan
IPR000842 all species →	Conserved_site	Phosphoribosyl pyrophosphate synthetase, conserved site	Interproscan
IPR029099 all species →	Domain	Ribose-phosphate pyrophosphokinase, N-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10210 all species →	RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000287 all species →	Molecular Function	magnesium ion binding	Interproscan
GO:0004749 all species →	Molecular Function	ribose phosphate diphosphokinase activity	Interproscan
GO:0009165 all species →	Biological Process	nucleotide biosynthetic process	Interproscan
GO:0009156 all species →	Biological Process	ribonucleoside monophosphate biosynthetic process	Interproscan
GO:0044249 all species →	Biological Process	obsolete cellular biosynthetic process	Interproscan
GO:0002189 all species →	Cellular Component	ribose phosphate diphosphokinase complex	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006015 all species →	Biological Process	5-phosphoribose 1-diphosphate biosynthetic process	Interproscan
GO:0006164 all species →	Biological Process	purine nucleotide biosynthetic process	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
K00948	PRPS, prsA; ribose-phosphate pyrophosphokinase	EC:2.7.6.1	Purine metabolism	ko00230	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_023789-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

60.6Max TPM

13.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.96	17.42
polyp at pH7 6	18	18	11.97	19.10
coral polyp · control treatment	16	16	18.21	59.80
coral polyp · oil and dispersant treatment	16	16	16.12	60.64
coral polyp · oil treatment	16	16	15.53	26.28
coral polyp · dispersant treatment	16	16	8.85	22.78
Polyp	10	10	13.31	27.04

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	-	17.42
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.22
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.55
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.25
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.48
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.84
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.30
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.07
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.49
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.16
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.91
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.23
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.84
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.09
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.99
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.22
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.98
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.80
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.20
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.39
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.66
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.91
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.53
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.77
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.71
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.63
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.68
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.18
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.58
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.08
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.04
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.32
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.34
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.01
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.74
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.39
SRR16705945	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	9.42
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.53
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.28
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.27
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.13
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.43
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.18
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.67
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.22
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.88
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.70
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.05
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.72
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.32
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.68
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.63
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.92
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.86
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.28
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.65
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.85
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.65
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.43
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.57
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.45
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.44
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.15
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.92

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.