Gene detail

Detailed information of OS493_008268-T1 in Lophelia pertusa

Genomic Location: scaffold_19:2016951...2023294
NR annotation: KAJ7393020.1, cGMP-dependent 3',5'-cyclic phosphodiesterase [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
P14099	cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Bos taurus OX=9913 GN=PDE2A PE=1 SV=2
Q01062	cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Rattus norvegicus OX=10116 GN=Pde2a PE=1 SV=2
O00408	cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Homo sapiens OX=9606 GN=PDE2A PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002981 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00233 all species →	PDEase_I	3'5'-cyclic nucleotide phosphodiesterase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002073 all species →	Domain	3'5'-cyclic nucleotide phosphodiesterase, catalytic domain	Interproscan
IPR036971 all species →	Homologous_superfamily	3'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamily	Interproscan
IPR023088 all species →	Family	3'5'-cyclic nucleotide phosphodiesterase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11347 all species →	CYCLIC NUCLEOTIDE PHOSPHODIESTERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004114 all species →	Molecular Function	3',5'-cyclic-nucleotide phosphodiesterase activity	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0008081 all species →	Molecular Function	phosphoric diester hydrolase activity	Interproscan
GO:0004115 all species →	Molecular Function	3',5'-cyclic-AMP phosphodiesterase activity	Interproscan
GO:0004118 all species →	Molecular Function	3',5'-cGMP-stimulated cyclic-nucleotide phosphodiesterase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005741 all species →	Cellular Component	mitochondrial outer membrane	Interproscan
GO:0005743 all species →	Cellular Component	mitochondrial inner membrane	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0010628 all species →	Biological Process	positive regulation of gene expression	Interproscan
GO:0010754 all species →	Biological Process	negative regulation of cGMP-mediated signaling	Interproscan
GO:0010821 all species →	Biological Process	regulation of mitochondrion organization	Interproscan
GO:0019933 all species →	Biological Process	cAMP-mediated signaling	Interproscan
GO:0019934 all species →	Biological Process	cGMP-mediated signaling	Interproscan
GO:0042803 all species →	Molecular Function	protein homodimerization activity	Interproscan
GO:0043951 all species →	Biological Process	negative regulation of cAMP-mediated signaling	Interproscan
GO:0046069 all species →	Biological Process	cGMP catabolic process	Interproscan
GO:0047555 all species →	Molecular Function	3',5'-cyclic-GMP phosphodiesterase activity	Interproscan
GO:0048471 all species →	Cellular Component	perinuclear region of cytoplasm	Interproscan
GO:0097060 all species →	Cellular Component	synaptic 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

No KEGG orthology assignment for OS493_008268-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_008268-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

109TPM > 0

7Conditions

197.6Max TPM

21.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	23.49	30.75
polyp at pH7 6	18	18	22.79	37.27
coral polyp · control treatment	16	16	26.32	197.56
coral polyp · oil and dispersant treatment	16	16	22.02	175.28
coral polyp · oil treatment	16	16	18.67	38.78
coral polyp · dispersant treatment	16	16	12.98	28.91
Polyp	10	9	19.85	38.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.73
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.97
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.67
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.32
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.97
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.68
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.80
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.31
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.94
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.56
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.43
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.17
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.04
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.77
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.45
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.43
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.16
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.45
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.99
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	197.56
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.05
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.07
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.41
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.24
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.18
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.04
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.98
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.59
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.51
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.67
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.10
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	175.28
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.57
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.06
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.15
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.01
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.29
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.04
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.50
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.72
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.44
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.41
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.19
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.63
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.51
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.80
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.35
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.98
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.38
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.54
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.74
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.27
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.13
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.67
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.26
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.96
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.04
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.57
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	35.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	32.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	24.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.98
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.63
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.