Gene detail

Detailed information of OS493_005073-T1 in Lophelia pertusa

Genomic Location: scaffold_10:2586729...2587274
NR annotation: KAJ7374726.1, Protein phosphatase 1 regulatory subunit 3G [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
Q6GL23	Protein phosphatase 1 regulatory subunit 3C OS=Xenopus tropicalis OX=8364 GN=ppp1r3c PE=2 SV=1
O95685	Protein phosphatase 1 regulatory subunit 3D OS=Homo sapiens OX=9606 GN=PPP1R3D PE=1 SV=1
Q803M0	Protein phosphatase 1 regulatory subunit 3B OS=Danio rerio OX=7955 GN=ppp1r3b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000769 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03370 all species →	CBM_21	Carbohydrate/starch-binding module (family 21)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005036 all species →	Domain	CBM21 (carbohydrate binding type-21) domain	Interproscan
IPR050782 all species →	Family	Protein phosphatase 1 regulatory subunit 3	Interproscan
IPR038175 all species →	Homologous_superfamily	CBM21 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12307 all species →	PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000164 all species →	Cellular Component	protein phosphatase type 1 complex	Interproscan
GO:0005979 all species →	Biological Process	regulation of glycogen biosynthetic process	Interproscan
GO:0008157 all species →	Molecular Function	protein phosphatase 1 binding	Interproscan
GO:2001069 all species →	Molecular Function	glycogen binding	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
K07189	PPP1R3; protein phosphatase 1 regulatory subunit 3A/B/C/D/E	-	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_005073-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

352.2Max TPM

37.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	20.56	43.74
polyp at pH7 6	18	18	18.53	32.17
coral polyp · control treatment	16	16	19.65	61.21
coral polyp · oil and dispersant treatment	16	16	37.54	83.74
coral polyp · oil treatment	16	16	16.70	37.70
coral polyp · dispersant treatment	16	16	135.65	352.15
Polyp	10	10	5.93	13.40

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.74
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.68
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.83
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.67
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.53
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.32
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.11
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.61
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.27
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.60
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.48
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.43
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.17
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.91
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.37
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.17
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.59
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.01
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.33
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.49
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.17
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.84
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.38
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.21
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.56
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.53
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.59
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.49
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.98
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.93
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.38
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.56
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.20
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.03
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.32
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.15
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.36
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.21
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.43
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.35
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.22
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.83
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.75
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.98
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	352.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	251.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	192.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	182.12
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	181.11
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	141.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	141.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	132.13
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	123.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	118.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	111.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.86
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.40
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.23
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.09
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.23
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.20
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.09

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.