Gene detail

Detailed information of OS493_003927-T1 in Lophelia pertusa

Genomic Location: scaffold_8:498767...500606
NR annotation: KAJ7386965.1, Serine/threonine-protein phosphatase pgam5, mitochondrial [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
Q502L2	Serine/threonine-protein phosphatase PGAM5, mitochondrial OS=Danio rerio OX=7955 GN=pgam5 PE=2 SV=2
B3MR30	Serine/threonine-protein phosphatase Pgam5, mitochondrial OS=Drosophila ananassae OX=7217 GN=Pgam5 PE=3 SV=1
B4NE96	Serine/threonine-protein phosphatase Pgam5, mitochondrial OS=Drosophila willistoni OX=7260 GN=Pgam5 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005102 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00300 all species →	His_Phos_1	Histidine phosphatase superfamily (branch 1)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051021 all species →	Family	Mitochondrial serine/threonine phosphatase	Interproscan
IPR029033 all species →	Homologous_superfamily	Histidine phosphatase superfamily	Interproscan
IPR013078 all species →	Family	Histidine phosphatase superfamily, clade-1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20935 all species →	PHOSPHOGLYCERATE MUTASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004722 all species →	Molecular Function	protein serine/threonine phosphatase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0035970 all species →	Biological Process	peptidyl-threonine dephosphorylation	Interproscan
GO:0090141 all species →	Biological Process	positive regulation of mitochondrial fission	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_003927-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_003927-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

102TPM > 0

7Conditions

19.2Max TPM

4.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.17	6.61
polyp at pH7 6	18	16	4.76	11.13
coral polyp · control treatment	16	16	4.47	10.11
coral polyp · oil and dispersant treatment	16	15	2.44	5.07
coral polyp · oil treatment	16	16	4.56	9.05
coral polyp · dispersant treatment	16	14	2.20	7.75
Polyp	10	9	7.40	19.21

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	-	6.61
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.26
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.11
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.13
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.75
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.05
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.58
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.47
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.09
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.98
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.09
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.73
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.95
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.11
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.31
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.90
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.04
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.79
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.77
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.87
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.65
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.66
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.07
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.22
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.08
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.05
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.36
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.05
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.37
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.99
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.81
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.17
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.34
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.24
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.93
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.75
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.26
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.21
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.11
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.93
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.06
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.42
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.