Gene detail

Detailed information of OS493_013505-T1 in Lophelia pertusa

Genomic Location: scaffold_37:488998...497956
NR annotation: KAJ7392133.1, hypothetical protein OS493_013505 [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
O02776	Poly(ADP-ribose) glycohydrolase OS=Bos taurus OX=9913 GN=PARG PE=1 SV=1
Q86W56	Poly(ADP-ribose) glycohydrolase OS=Homo sapiens OX=9606 GN=PARG PE=1 SV=1
O88622	Poly(ADP-ribose) glycohydrolase OS=Mus musculus OX=10090 GN=Parg PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002028 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05028 all species →	PARG_cat_C	Poly (ADP-ribose) glycohydrolase (PARG), Macro domain fold	Domain	Interproscan
PF20811 all species →	PARG_cat_N	Poly (ADP-ribose) glycohydrolase (PARG), helical domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR046372 all species →	Domain	Poly (ADP-ribose) glycohydrolase (PARG), catalytic domain	Interproscan
IPR007724 all species →	Family	Poly(ADP-ribose) glycohydrolase	Interproscan
IPR048362 all species →	Domain	Poly (ADP-ribose) glycohydrolase, helical domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12837 all species →	POLY ADP-RIBOSE GLYCOHYDROLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004649 all species →	Molecular Function	poly(ADP-ribose) glycohydrolase activity	Interproscan
GO:0006282 all species →	Biological Process	regulation of DNA repair	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0009225 all species →	Biological Process	nucleotide-sugar metabolic process	Interproscan
GO:1990966 all species →	Biological Process	ATP generation from poly-ADP-D-ribose	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
K07759	PARG; poly(ADP-ribose) glycohydrolase	EC:3.2.1.143	Base excision repair	ko03410	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_013505-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

87.1Max TPM

33.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	38.02	56.73
polyp at pH7 6	18	18	38.57	58.20
coral polyp · control treatment	16	16	33.58	52.87
coral polyp · oil and dispersant treatment	16	16	24.92	65.20
coral polyp · oil treatment	16	16	36.48	58.97
coral polyp · dispersant treatment	16	16	19.02	31.97
Polyp	10	10	49.84	87.12

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.73
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.08
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.66
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.67
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.62
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.34
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.21
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.70
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.99
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.03
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.20
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.91
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.44
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.14
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.91
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.68
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.22
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.12
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.87
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.68
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.33
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.35
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.40
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.89
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.54
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.35
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.26
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.22
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.72
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.80
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.46
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.72
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.16
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.42
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.95
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.22
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.82
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.12
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.16
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.24
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.42
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.57
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.37
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.26
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.94
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.21
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.48
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	87.12
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	62.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	56.48
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	56.34
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	49.10
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	48.66
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	48.25
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	42.71
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	25.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.84

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.