Gene detail

Detailed information of OS493_035459-T1 in Lophelia pertusa

Genomic Location: scaffold_321:136034...151644
NR annotation: KAJ7376319.1, Protein phosphatase methylesterase 1 [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
Q8BVQ5	Protein phosphatase methylesterase 1 OS=Mus musculus OX=10090 GN=Ppme1 PE=1 SV=5
Q58DN4	Protein phosphatase methylesterase 1 OS=Bos taurus OX=9913 GN=PPME1 PE=2 SV=3
Q9Y570	Protein phosphatase methylesterase 1 OS=Homo sapiens OX=9606 GN=PPME1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003707 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12697 all species →	Abhydrolase_6	Alpha/beta hydrolase family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016812 all species →	Family	Protein phosphatase methylesterase, eukaryotic	Interproscan
IPR029058 all species →	Homologous_superfamily	Alpha/Beta hydrolase fold	Interproscan
IPR000073 all species →	Domain	Alpha/beta hydrolase fold-1	Interproscan
IPR000639 all species →	Family	Epoxide hydrolase-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14189 all species →	PROTEIN PHOSPHATASE METHYLESTERASE-1 RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006482 all species →	Biological Process	protein demethylation	Interproscan
GO:0051723 all species →	Molecular Function	protein methylesterase activity	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	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
K13617	PPME1; protein phosphatase methylesterase 1	EC:3.1.1.89	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_035459-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

110TPM > 0

7Conditions

38.5Max TPM

10.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.74	15.62
polyp at pH7 6	18	18	11.92	17.41
coral polyp · control treatment	16	16	10.01	18.62
coral polyp · oil and dispersant treatment	16	16	6.65	23.79
coral polyp · oil treatment	16	16	10.64	16.10
coral polyp · dispersant treatment	16	16	4.97	9.77
Polyp	10	10	20.76	38.54

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.29
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.02
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.43
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.77
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.71
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.44
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.10
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.04
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.75
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.67
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.22
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.78
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.58
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.05
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.41
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.63
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.88
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.96
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.04
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.89
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.83
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.19
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.56
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.33
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.93
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.93
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.23
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.05
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.26
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.48
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.25
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.09
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.79
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.63
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.30
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.06
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.90
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.96
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.30
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.12
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.10
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.99
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.69
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.10
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.47
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.27
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.92
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.77
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.35
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.32
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.95
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.77
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.43
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.08
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.79
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.74
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.97
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	38.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	34.06
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.75
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	19.13
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	19.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	17.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.80
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.10

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.