Gene detail

Detailed information of OS493_009958-T1 in Lophelia pertusa

Genomic Location: scaffold_24:1081273...1088788
NR annotation: KAJ7337106.1, Ribonuclease P protein subunit p40 [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
O75818	Ribonuclease P protein subunit p40 OS=Homo sapiens OX=9606 GN=RPP40 PE=1 SV=3
Q5BK64	Ribonuclease P protein subunit p40 OS=Rattus norvegicus OX=10116 GN=Rpp40 PE=2 SV=2
Q8R1F9	Ribonuclease P protein subunit p40 OS=Mus musculus OX=10090 GN=Rpp40 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008980 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08584 all species →	Ribonuc_P_40	Ribonuclease P 40kDa (Rpp40) subunit	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013893 all species →	Family	Ribonuclease P protein subunit Rpp40	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15396 all species →	RIBONUCLEASE P PROTEIN SUBUNIT P40	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000171 all species →	Molecular Function	ribonuclease MRP activity	Interproscan
GO:0000172 all species →	Cellular Component	ribonuclease MRP complex	Interproscan
GO:0000447 all species →	Biological Process	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0001682 all species →	Biological Process	tRNA 5'-leader removal	Interproscan
GO:0004526 all species →	Molecular Function	ribonuclease P activity	Interproscan
GO:0030677 all species →	Cellular Component	ribonuclease P complex	Interproscan
GO:0030681 all species →	Cellular Component	multimeric ribonuclease P complex	Interproscan
GO:1905267 all species →	Biological Process	obsolete endonucleolytic cleavage involved in tRNA processing	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
K14530	RPP40; ribonucleases P/MRP protein subunit RPP40	EC:3.1.26.5	Mitochondrial biogenesis	ko03029	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_009958-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

108TPM > 0

7Conditions

17.4Max TPM

6.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.78	9.88
polyp at pH7 6	18	18	9.37	17.44
coral polyp · control treatment	16	16	6.12	11.02
coral polyp · oil and dispersant treatment	16	15	3.51	7.16
coral polyp · oil treatment	16	16	5.76	11.51
coral polyp · dispersant treatment	16	16	3.98	7.86
Polyp	10	9	7.93	15.55

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.88
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.59
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.01
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.74
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.57
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.85
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.23
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.34
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.96
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.73
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.44
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.35
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.39
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.79
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.40
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.10
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.09
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.80
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.38
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.11
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.39
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.11
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.97
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.40
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.62
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.01
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.01
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.45
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.21
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.55
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.39
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.76
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.73
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.51
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.54
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.83
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.82
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.37
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.73
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.37
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.06
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.05
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.86
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.92
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.44
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.74
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.08
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.13
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.01
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.