Gene detail

Detailed information of OS493_016787-T1 in Lophelia pertusa

Genomic Location: scaffold_52:1655874...1674376
NR annotation: KAJ7372861.1, 8-oxoguanine glycosylase ogg1 [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
O15527	N-glycosylase/DNA lyase OS=Homo sapiens OX=9606 GN=OGG1 PE=1 SV=2
O70249	N-glycosylase/DNA lyase OS=Rattus norvegicus OX=10116 GN=Ogg1 PE=2 SV=1
O08760	N-glycosylase/DNA lyase OS=Mus musculus OX=10090 GN=Ogg1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005451 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00730 all species →	HhH-GPD	HhH-GPD superfamily base excision DNA repair protein	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011257 all species →	Homologous_superfamily	DNA glycosylase	Interproscan
IPR052054 all species →	Family	Oxidative DNA damage repair enzyme	Interproscan
IPR003265 all species →	Domain	HhH-GPD domain	Interproscan
IPR023170 all species →	Homologous_superfamily	Helix-hairpin-helix, base-excision DNA repair, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10242 all species →	8-OXOGUANINE DNA GLYCOSYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006285 all species →	Biological Process	base-excision repair, AP site formation	Interproscan
GO:0034039 all species →	Molecular Function	8-oxo-7,8-dihydroguanine DNA N-glycosylase activity	Interproscan
GO:0006284 all species →	Biological Process	base-excision repair	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
K03660	OGG1; N-glycosylase/DNA lyase	EC:3.2.2.- EC:4.2.99.18	DNA repair and recombination proteins	ko03400	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_016787-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

42.8Max TPM

21.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	26.70	41.45
polyp at pH7 6	18	18	24.41	32.80
coral polyp · control treatment	16	16	24.77	42.84
coral polyp · oil and dispersant treatment	16	16	19.28	36.19
coral polyp · oil treatment	16	16	22.78	29.82
coral polyp · dispersant treatment	16	16	15.64	32.89
Polyp	10	10	17.26	28.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.43
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.47
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.94
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.75
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.46
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.42
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.60
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.74
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.55
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.29
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.26
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.08
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.72
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.96
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.24
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.30
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.77
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.80
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.36
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.23
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.62
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.59
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.37
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.44
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.41
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.21
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.06
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.39
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.15
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.60
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.19
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.91
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.57
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.93
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.90
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.56
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.40
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.69
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.49
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.99
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.87
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.20
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.71
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.37
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.27
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.31
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.11
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.33
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.63
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.89
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.68
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.17
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.60
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.43
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.64
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.81
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	27.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	25.35
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.13
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.72
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.25
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.43

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.