Gene detail

Detailed information of OS493_024921-T1 in Lophelia pertusa

Genomic Location: scaffold_119:180785...186565
NR annotation: KAJ7357410.1, CAAX prenyl protease [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
Q9Y256	CAAX prenyl protease 2 OS=Homo sapiens OX=9606 GN=RCE1 PE=1 SV=1
P57791	CAAX prenyl protease 2 OS=Mus musculus OX=10090 GN=Rce1 PE=2 SV=1
A6H7A0	CAAX prenyl protease 2 OS=Bos taurus OX=9913 GN=RCE1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006119 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02517 all species →	Rce1-like	Type II CAAX prenyl endopeptidase Rce1-like	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039731 all species →	Family	CAAX prenyl protease 2, eukaryotes	Interproscan
IPR003675 all species →	Family	Type II CAAX prenyl endopeptidase Rce1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13046 all species →	PROTEASE U48 CAAX PRENYL PROTEASE RCE1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004222 all species →	Molecular Function	metalloendopeptidase activity	Interproscan
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0030176 all species →	Cellular Component	obsolete integral component of endoplasmic reticulum membrane	Interproscan
GO:0071586 all species →	Biological Process	CAAX-box protein processing	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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
K08658	RCE1, FACE2; intramembrane prenyl-peptidase	EC:3.4.26.1	Peptidases and inhibitors	ko01002	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_024921-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

106TPM > 0

7Conditions

7.2Max TPM

3.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.54	4.36
polyp at pH7 6	18	16	2.59	6.26
coral polyp · control treatment	16	16	4.01	6.68
coral polyp · oil and dispersant treatment	16	16	2.21	4.69
coral polyp · oil treatment	16	16	4.08	5.57
coral polyp · dispersant treatment	16	16	1.99	3.79
Polyp	10	9	3.76	7.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.36
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.29
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.09
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.14
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.54
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.49
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.04
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.35
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.34
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.24
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.73
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.60
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.51
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.54
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.17
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
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.68
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.73
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.69
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.84
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.64
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.41
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.65
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.69
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.71
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.62
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.30
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.47
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.22
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.85
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.85
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.57
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.56
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.50
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.19
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.26
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.04
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.79
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.45
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.16
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.89
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.87
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.05
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.34
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.79
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.33
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.10
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.09
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.