Gene detail

Detailed information of OS493_005076-T1 in Lophelia pertusa

Genomic Location: scaffold_10:2598860...2603916
NR annotation: KAJ7374729.1, Protein phosphatase 1 regulatory subunit 3E [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
O95685	Protein phosphatase 1 regulatory subunit 3D OS=Homo sapiens OX=9606 GN=PPP1R3D PE=1 SV=1
Q9JIG4	Protein phosphatase 1 regulatory subunit 3F OS=Mus musculus OX=10090 GN=Ppp1r3f PE=1 SV=3
Q6ZSY5	Protein phosphatase 1 regulatory subunit 3F OS=Homo sapiens OX=9606 GN=PPP1R3F PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000773 (this species only) · gene tree & orthology

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
IPR038175 all species →	Homologous_superfamily	CBM21 domain superfamily	Interproscan
IPR050782 all species →	Family	Protein phosphatase 1 regulatory subunit 3	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

No KEGG orthology assignment for OS493_005076-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_005076-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

1,473.5Max TPM

161.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.11	16.26
polyp at pH7 6	18	18	14.14	23.37
coral polyp · control treatment	16	16	75.87	374.38
coral polyp · oil and dispersant treatment	16	16	165.94	315.63
coral polyp · oil treatment	16	16	47.13	132.42
coral polyp · dispersant treatment	16	16	779.95	1,473.54
Polyp	10	10	23.94	83.97

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	-	16.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.20
SRR11359522	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
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.63
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.87
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.94
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.39
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.70
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.62
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.15
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.87
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.58
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.49
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.33
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.01
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.99
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.50
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.82
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.64
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.31
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.84
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.91
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.24
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.63
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	374.38
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	205.78
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	127.94
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.19
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.65
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.18
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.73
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.41
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.33
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.16
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.95
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	315.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	298.08
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	266.46
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	223.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	199.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	192.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	191.88
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	146.49
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	127.68
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	121.98
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.42
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.28
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.40
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.74
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	132.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.16
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.16
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.50
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.13
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.18
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.43
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.21
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.23
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.49
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.26
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.43
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,473.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,356.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,157.55
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,068.30
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,032.85
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	910.13
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	838.30
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	813.47
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	758.39
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	747.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	670.29
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	419.74
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	401.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	352.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	316.83
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	162.25
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	83.97
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	39.87
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	32.89
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.04
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.30
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	11.64
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.18
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.61
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.29

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.