Gene detail

Detailed information of OS493_004628-T1 in Lophelia pertusa

Genomic Location: scaffold_9:2806356...2808501
NR annotation: KAJ7381032.1, Prenylcysteine oxidase-like [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
Q9UHG3	Prenylcysteine oxidase 1 OS=Homo sapiens OX=9606 GN=PCYOX1 PE=1 SV=3
Q5R748	Prenylcysteine oxidase 1 OS=Pongo abelii OX=9601 GN=PCYOX1 PE=2 SV=1
Q9CQF9	Prenylcysteine oxidase 1 OS=Mus musculus OX=10090 GN=Pcyox1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006379 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07156 all species →	Prenylcys_lyase	Prenylcysteine lyase	Family	Interproscan
PF13450 all species →	NAD_binding_8	NAD(P)-binding Rossmann-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017046 all species →	Family	Prenylcysteine oxidase	Interproscan
IPR010795 all species →	Domain	Prenylcysteine lyase	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15944 all species →	FARNESYLCYSTEINE LYASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001735 all species →	Molecular Function	prenylcysteine oxidase activity	Interproscan
GO:0030327 all species →	Biological Process	prenylated protein catabolic process	Interproscan
GO:0016670 all species →	Molecular Function	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor	Interproscan
GO:0030328 all species →	Biological Process	prenylcysteine 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_004628-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_004628-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

92TPM > 0

7Conditions

4.6Max TPM

1.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	0.72	1.53
polyp at pH7 6	18	10	0.67	1.92
coral polyp · control treatment	16	16	2.03	4.24
coral polyp · oil and dispersant treatment	16	16	1.42	2.86
coral polyp · oil treatment	16	15	1.66	3.14
coral polyp · dispersant treatment	16	15	1.79	4.60
Polyp	10	7	0.92	2.13

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.53
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.48
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.39
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.80
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.50
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
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.69
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.32
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.19
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.14
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.94
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.62
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.52
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359502	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
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	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
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.08
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.77
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.37
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.96
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.58
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.20
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.86
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.64
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.24
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.99
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.33
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.91
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.90
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.27
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.81
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.44
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.69
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.13
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.97
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.87
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.73
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.38
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.