Gene detail

Detailed information of OS493_005077-T1 in Lophelia pertusa

Genomic Location: scaffold_10:2608019...2608663
NR annotation: KAJ7374730.1, hypothetical protein OS493_005077 [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
Q28E28	Protein phosphatase 1 regulatory subunit 3B OS=Xenopus tropicalis OX=8364 GN=ppp1r3b PE=2 SV=1
Q9VVY3	Glycogen-binding subunit 76A OS=Drosophila melanogaster OX=7227 GN=Gbs-76A PE=1 SV=1
Q5BL87	Protein phosphatase 1 regulatory subunit 3B-A OS=Xenopus laevis OX=8355 GN=ppp1r3b-a 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
IPR038175 all species →	Homologous_superfamily	CBM21 domain superfamily	Interproscan
IPR050782 all species →	Family	Protein phosphatase 1 regulatory subunit 3	Interproscan
IPR005036 all species →	Domain	CBM21 (carbohydrate binding type-21) domain	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_005077-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

235.7Max TPM

71.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	62.47	118.71
polyp at pH7 6	18	18	59.77	95.14
coral polyp · control treatment	16	16	75.98	132.54
coral polyp · oil and dispersant treatment	16	16	68.61	193.76
coral polyp · oil treatment	16	16	65.93	140.89
coral polyp · dispersant treatment	16	16	120.24	235.73
Polyp	10	10	39.05	72.89

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	-	118.71
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	114.83
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.40
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.47
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.00
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.80
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.08
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.37
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.56
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.07
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.14
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.12
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.34
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.60
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.88
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.89
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.36
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.60
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.87
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.90
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.20
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.44
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.05
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.85
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	132.54
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	106.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.38
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.53
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.63
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.67
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.80
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.89
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	193.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	115.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	108.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.68
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.51
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.14
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.06
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.76
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.26
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.80
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.54
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.66
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	140.89
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	99.37
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.21
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.79
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.12
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.58
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.17
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.79
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	235.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	201.34
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	191.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	163.01
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	143.89
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	124.05
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	122.48
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	100.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.43
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.66
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	72.89
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	63.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	47.47
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	39.70
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	36.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	34.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	25.52
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	22.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.20

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.