Gene detail

Detailed information of OS493_012705-T1 in Lophelia pertusa

Genomic Location: scaffold_33:2177008...2178227
NR annotation: KAJ7379943.1, Exosome component 5 [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
Q9NQT4	Exosome complex component RRP46 OS=Homo sapiens OX=9606 GN=EXOSC5 PE=1 SV=1
Q9CRA8	Exosome complex component RRP46 OS=Mus musculus OX=10090 GN=Exosc5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006435 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01138 all species →	RNase_PH	3' exoribonuclease family, domain 1	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR027408 all species →	Homologous_superfamily	PNPase/RNase PH domain superfamily	Interproscan
IPR050080 all species →	Family	Ribonuclease PH	Interproscan
IPR001247 all species →	Domain	Exoribonuclease, phosphorolytic domain 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11953 all species →	EXOSOME COMPLEX COMPONENT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000176 all species →	Cellular Component	nuclear exosome (RNase complex)	Interproscan
GO:0000177 all species →	Cellular Component	cytoplasmic exosome (RNase complex)	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0016075 all species →	Biological Process	rRNA catabolic process	Interproscan
GO:0034427 all species →	Biological Process	obsolete nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'	Interproscan
GO:0034475 all species →	Biological Process	U4 snRNA 3'-end processing	Interproscan
GO:0071028 all species →	Biological Process	nuclear mRNA surveillance	Interproscan
GO:0071051 all species →	Biological Process	poly(A)-dependent snoRNA 3'-end 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

No KEGG orthology assignment for OS493_012705-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_012705-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

97TPM > 0

7Conditions

28.8Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	3.13	7.70
polyp at pH7 6	18	14	5.20	13.30
coral polyp · control treatment	16	16	5.96	12.97
coral polyp · oil and dispersant treatment	16	15	5.54	28.81
coral polyp · oil treatment	16	16	4.87	7.67
coral polyp · dispersant treatment	16	14	3.75	9.77
Polyp	10	9	5.00	9.36

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.70
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.82
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.64
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.70
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.26
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.28
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.24
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.37
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.95
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.58
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.92
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.97
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.40
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.53
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.92
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.71
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.70
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.05
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.42
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.16
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.56
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.02
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.81
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.99
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.90
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.33
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.13
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.30
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.67
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.09
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.85
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.10
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.29
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.86
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.15
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.83
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.76
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.36
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.95
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.53
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.89
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.81
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.69
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.60
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.