Gene detail

Detailed information of OS493_030773-T1 in Lophelia pertusa

Genomic Location: scaffold_202:353763...354769
NR annotation: KAJ7370659.1, Ribonucleoside-diphosphate reductase subunit M2 [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
P11157	Ribonucleoside-diphosphate reductase subunit M2 OS=Mus musculus OX=10090 GN=Rrm2 PE=1 SV=1
P07201	Ribonucleoside-diphosphate reductase small chain OS=Spisula solidissima OX=6584 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003096 (this species only)

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
IPR030475 all species →	Active_site	Ribonucleotide reductase small subunit, acitve site	Interproscan
IPR033909 all species →	Family	Ribonucleotide reductase small subunit	Interproscan
IPR012348 all species →	Homologous_superfamily	Ribonucleotide reductase-like	Interproscan
IPR000358 all species →	Family	Ribonucleotide reductase small subunit family	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

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_030773-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

109TPM > 0

7Conditions

12.3Max TPM

5.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.31	8.91
polyp at pH7 6	18	18	6.62	9.56
coral polyp · control treatment	16	16	5.47	9.57
coral polyp · oil and dispersant treatment	16	16	6.48	12.27
coral polyp · oil treatment	16	16	4.87	7.18
coral polyp · dispersant treatment	16	16	4.06	12.08
Polyp	10	9	5.34	9.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.91
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.02
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.09
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.56
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.41
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.29
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.55
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.22
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.90
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.41
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.15
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.94
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.77
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.71
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.13
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.51
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.45
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.62
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.51
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.03
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.62
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.61
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.80
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.89
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.26
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.54
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.70
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.48
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.42
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.98
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.58
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.93
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.90
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.68
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.95
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.90
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.81
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.62
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.04
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.39
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.51
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.16
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.19
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.