Gene detail

Detailed information of OS493_009556-T1 in Lophelia pertusa

Genomic Location: scaffold_23:174132...176825
NR annotation: KAJ7363404.1, hypothetical protein OS493_009556 [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
Q32PF3	PEST proteolytic signal-containing nuclear protein OS=Bos taurus OX=9913 GN=PCNP PE=2 SV=1
Q8WW12	PEST proteolytic signal-containing nuclear protein OS=Homo sapiens OX=9606 GN=PCNP PE=1 SV=2
Q5RCI9	PEST proteolytic signal-containing nuclear protein OS=Pongo abelii OX=9601 GN=PCNP PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008654 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15473 all species →	PCNP	PEST, proteolytic signal-containing nuclear protein family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029169 all species →	Family	PEST proteolytic signal-containing nuclear protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16523 all species →	PEST PROTEOLYTIC SIGNAL-CONTAINING NUCLEAR PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic 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

No KEGG orthology assignment for OS493_009556-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_009556-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

38.7Max TPM

11.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.33	16.95
polyp at pH7 6	18	18	10.52	17.73
coral polyp · control treatment	16	16	15.74	38.71
coral polyp · oil and dispersant treatment	16	16	10.52	34.63
coral polyp · oil treatment	16	16	13.94	20.01
coral polyp · dispersant treatment	16	16	8.43	14.15
Polyp	10	9	8.02	14.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.95
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.21
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.35
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.84
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.45
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.87
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.65
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.93
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.89
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.70
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.26
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.58
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.42
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.37
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.29
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.65
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.66
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.03
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.68
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.53
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.05
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.82
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.63
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.15
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.72
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.60
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.66
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.50
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.14
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.63
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.81
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.46
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.67
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.86
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.52
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.51
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.49
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.01
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.88
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.51
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.15
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.86
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.64
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.15
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.63
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.83
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.98
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.48
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.50
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.58
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.82
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.17
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.62
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.18
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.75
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.50
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.