Gene detail

Detailed information of OS493_013024-T1 in Lophelia pertusa

Genomic Location: scaffold_34:2537062...2543853
NR annotation: KAJ7373430.1, Phosphatidylglycerophosphatase and protein-tyrosine phosphatase 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
Q86BN8	Phosphatidylglycerophosphatase and protein-tyrosine phosphatase 1 OS=Drosophila melanogaster OX=7227 GN=PTPMT1 PE=2 SV=1
Q8WUK0	Phosphatidylglycerophosphatase and protein-tyrosine phosphatase 1 OS=Homo sapiens OX=9606 GN=PTPMT1 PE=1 SV=1
Q66GT5	Phosphatidylglycerophosphatase and protein-tyrosine phosphatase 1 OS=Mus musculus OX=10090 GN=Ptpmt1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006003 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00782 all species →	DSPc	Dual specificity phosphatase, catalytic domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000340 all species →	Domain	Dual specificity phosphatase, catalytic domain	Interproscan
IPR029021 all species →	Homologous_superfamily	Protein-tyrosine phosphatase-like	Interproscan
IPR042165 all species →	Family	Phosphatidylglycerophosphatase and protein-tyrosine phosphatase 1	Interproscan
IPR003595 all species →	Domain	Protein-tyrosine phosphatase, catalytic	Interproscan
IPR016130 all species →	Active_site	Protein-tyrosine phosphatase, active site	Interproscan
IPR020422 all species →	Domain	Dual specificity protein phosphatase domain	Interproscan
IPR000387 all species →	Domain	Tyrosine-specific protein phosphatases domain	Interproscan
IPR044596 all species →	Family	Phosphatidylglycerophosphatase and protein-tyrosine phosphatase 1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46712 all species →	PHOSPHATIDYLGLYCEROPHOSPHATASE AND PROTEIN-TYROSINE PHOSPHATASE 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016311 all species →	Biological Process	dephosphorylation	Interproscan
GO:0004439 all species →	Molecular Function	phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity	Interproscan
GO:0004721 all species →	Molecular Function	phosphoprotein phosphatase activity	Interproscan
GO:0008962 all species →	Molecular Function	phosphatidylglycerophosphatase activity	Interproscan
GO:0006470 all species →	Biological Process	protein dephosphorylation	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
K14165	K14165; atypical dual specificity phosphatase	EC:3.1.3.16 EC:3.1.3.48	Protein phosphatases and associated proteins	ko01009	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_013024-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

68.9Max TPM

27.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.76	58.89
polyp at pH7 6	18	18	24.97	59.14
coral polyp · control treatment	16	16	31.94	68.92
coral polyp · oil and dispersant treatment	16	16	31.73	61.66
coral polyp · oil treatment	16	16	30.22	65.07
coral polyp · dispersant treatment	16	16	21.36	39.03
Polyp	10	10	23.25	43.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.89
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.38
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.61
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.37
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.40
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.41
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.38
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.33
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.04
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.09
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.24
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.55
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.14
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.69
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.27
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.17
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.97
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.40
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.21
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.64
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.92
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.34
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.27
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.59
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.16
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.55
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.51
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.60
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.67
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.48
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.19
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.15
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.52
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.40
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.55
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.49
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.49
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.44
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.64
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.96
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.96
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.58
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.03
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.33
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.52
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.88
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.32
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.95
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.18
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.74
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.99
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.72
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.20
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	43.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	37.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	35.68
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	29.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	21.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	18.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	18.01
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.21
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.76
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.12

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.