Gene detail

Detailed information of OS493_030448-T1 in Lophelia pertusa

Genomic Location: scaffold_196:172496...187930
NR annotation: KAJ7370696.1, PRKCA-binding protein [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
Q9EP80	PRKCA-binding protein OS=Rattus norvegicus OX=10116 GN=Pick1 PE=1 SV=1
Q9NRD5	PRKCA-binding protein OS=Homo sapiens OX=9606 GN=PICK1 PE=1 SV=2
Q5REH1	PRKCA-binding protein OS=Pongo abelii OX=9601 GN=PICK1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007298 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17820 all species →	PDZ_6	PDZ domain	Domain	Interproscan
PF06456 all species →	Arfaptin	Arfaptin-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010504 all species →	Domain	Arfaptin homology (AH) domain	Interproscan
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR030798 all species →	Family	Arfaptin family	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR041489 all species →	Domain	PDZ domain 6	Interproscan
IPR027267 all species →	Homologous_superfamily	AH/BAR domain superfamily	Interproscan
IPR037959 all species →	Domain	PICK1, BAR domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12141 all species →	ARFAPTIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0019904 all species →	Molecular Function	protein domain specific binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0002092 all species →	Biological Process	positive regulation of receptor internalization	Interproscan
GO:0005080 all species →	Molecular Function	protein kinase C binding	Interproscan
GO:0005543 all species →	Molecular Function	phospholipid binding	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0032588 all species →	Cellular Component	trans-Golgi network membrane	Interproscan
GO:0034315 all species →	Biological Process	regulation of Arp2/3 complex-mediated actin nucleation	Interproscan
GO:0043113 all species →	Biological Process	receptor clustering	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
K24062	PICK1; PRKCA-binding protein	-	Domain-containing proteins not elsewhere classified	ko04990	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_030448-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

48.0Max TPM

16.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.92	17.38
polyp at pH7 6	18	18	11.36	15.57
coral polyp · control treatment	16	16	22.20	48.04
coral polyp · oil and dispersant treatment	16	16	21.62	45.38
coral polyp · oil treatment	16	16	19.68	38.28
coral polyp · dispersant treatment	16	16	16.95	39.67
Polyp	10	9	6.79	13.11

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.38
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.16
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.91
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.34
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.62
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.16
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.86
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.83
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.10
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.93
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.56
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.83
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.78
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.33
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.83
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.55
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.18
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.92
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.91
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.47
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.92
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.99
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.04
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.86
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.52
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.58
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.85
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.60
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.10
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.34
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.38
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.33
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.90
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.85
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.87
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.85
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.23
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.28
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.81
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.82
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.70
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.64
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.56
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.52
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.27
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.92
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.72
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.56
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.09
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.57
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.09
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.70
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.38
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.36
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.82
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.11
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.83
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.22
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.92
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.62
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.21
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.20
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.79
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.