Gene detail

Detailed information of OS493_020192-T1 in Lophelia pertusa

Genomic Location: scaffold_73:1635303...1639376
NR annotation: KAJ7391162.1, Ribonucleoside-diphosphate reductase subunit M2 B [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
P31350	Ribonucleoside-diphosphate reductase subunit M2 OS=Homo sapiens OX=9606 GN=RRM2 PE=1 SV=1
P79733	Ribonucleoside-diphosphate reductase subunit M2 OS=Danio rerio OX=7955 GN=rrm2 PE=1 SV=1
Q4R7Q7	Ribonucleoside-diphosphate reductase subunit M2 OS=Macaca fascicularis OX=9541 GN=RRM2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003090 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00268 all species →	Ribonuc_red_sm	Ribonucleotide reductase, small chain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033909 all species →	Family	Ribonucleotide reductase small subunit	Interproscan
IPR030475 all species →	Active_site	Ribonucleotide reductase small subunit, acitve site	Interproscan
IPR000358 all species →	Family	Ribonucleotide reductase small subunit family	Interproscan
IPR012348 all species →	Homologous_superfamily	Ribonucleotide reductase-like	Interproscan
IPR009078 all species →	Homologous_superfamily	Ferritin-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23409 all species →	RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE SMALL CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009263 all species →	Biological Process	deoxyribonucleotide biosynthetic process	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0004748 all species →	Molecular Function	ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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
K10808	RRM2; ribonucleoside-diphosphate reductase subunit M2	EC:1.17.4.1	DNA repair and recombination proteins	ko03400	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_020192-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

345.1Max TPM

69.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	95.24	174.74
polyp at pH7 6	18	18	67.79	141.12
coral polyp · control treatment	16	16	66.97	288.03
coral polyp · oil and dispersant treatment	16	16	60.78	330.50
coral polyp · oil treatment	16	16	80.74	345.09
coral polyp · dispersant treatment	16	16	37.05	80.52
Polyp	10	10	74.47	188.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	174.74
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	166.85
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	166.59
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	165.59
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	134.27
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	130.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	117.35
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	114.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.02
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.70
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.92
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.11
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.10
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.93
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	141.12
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	133.57
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	129.22
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	123.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.92
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.61
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.60
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.37
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.32
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.54
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.87
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	288.03
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.66
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.69
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.59
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.98
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.77
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.54
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.64
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.57
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.31
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.80
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.40
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	330.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	156.05
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.09
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.54
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.78
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.13
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.95
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.26
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.56
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.49
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.17
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	345.09
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	261.72
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	114.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.43
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.55
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.21
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.98
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.34
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.97
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.91
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.17
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.37
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.52
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.83
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.51
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.32
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.87
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.45
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.61
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.39
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.82
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	188.81
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	129.68
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	110.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	92.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	63.49
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	51.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	49.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	32.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	16.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.31

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.