Gene detail

Detailed information of OS493_001469-T1 in Lophelia pertusa

Genomic Location: scaffold_3:2119061...2128670
NR annotation: KAJ7381344.1, Programmed cell death protein 10 [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
Q8AVR4	Programmed cell death protein 10 OS=Xenopus laevis OX=8355 GN=pdcd10 PE=2 SV=1
Q6DF07	Programmed cell death protein 10 OS=Xenopus tropicalis OX=8364 GN=pdcd10 PE=2 SV=1
Q5ZIV5	Programmed cell death protein 10 OS=Gallus gallus OX=9031 GN=PDCD10 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006990 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06840 all species →	PDC10_C	Programmed cell death protein 10, C-terminal	Domain	Interproscan
PF20929 all species →	PDCD10_N	Programmed cell death protein 10, dimerisation domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR053750 all species →	Homologous_superfamily	Programmed Cell Death 10 Homolog	Interproscan
IPR009652 all species →	Family	Programmed cell death protein 10	Interproscan
IPR048288 all species →	Domain	Programmed cell death protein 10, dimerisation domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13250 all species →	TF-1 CELL APOPTOSIS RELATED PROTEIN-15	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0019901 all species →	Molecular Function	protein kinase binding	Interproscan
GO:0043406 all species →	Biological Process	positive regulation of MAP kinase activity	Interproscan
GO:0090443 all species →	Cellular Component	FAR/SIN/STRIPAK complex	Interproscan
GO:1903358 all species →	Biological Process	regulation of Golgi organization	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
K18269	PDCD10, CCM3; programmed cell death protein 10	-	Exosome	ko04147	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_001469-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

196.6Max TPM

65.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	58.70	92.07
polyp at pH7 6	18	18	65.66	113.21
coral polyp · control treatment	16	16	75.59	161.24
coral polyp · oil and dispersant treatment	16	16	64.64	196.55
coral polyp · oil treatment	16	16	73.05	101.59
coral polyp · dispersant treatment	16	16	43.06	91.48
Polyp	10	10	90.97	133.50

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	92.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	89.30
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.21
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.24
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.65
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.22
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.59
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.40
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.77
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.46
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.21
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	98.03
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	83.19
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.16
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.39
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.33
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.78
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.96
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.25
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.53
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	161.24
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.37
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.27
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.72
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.21
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.47
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.01
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.38
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.21
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	196.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.39
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.86
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.67
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.83
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.66
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.99
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.68
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	101.59
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	94.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.45
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.10
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.33
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.76
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.87
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.88
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.61
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.48
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.26
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.19
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.98
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.23
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.26
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.25
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.88
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.31
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.89
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.79
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	133.50
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	127.58
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	115.90
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	89.86
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	83.50
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	82.04
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	75.18
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	71.84
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	69.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	60.47

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.