Gene detail

Detailed information of OS493_001271-T1 in Lophelia pertusa

Genomic Location: scaffold_2:7312116...7312934
NR annotation: KAJ7387919.1, Alpha-ketoglutarate-dependent dioxygenase alkB 2 [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
Q58DM4	DNA oxidative demethylase ALKBH2 OS=Bos taurus OX=9913 GN=ALKBH2 PE=2 SV=1
Q6NS38	DNA oxidative demethylase ALKBH2 OS=Homo sapiens OX=9606 GN=ALKBH2 PE=1 SV=1
Q6P6J4	DNA oxidative demethylase ALKBH2 OS=Mus musculus OX=10090 GN=Alkbh2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007035 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13532 all species →	2OG-FeII_Oxy_2	2OG-Fe(II) oxygenase superfamily	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032852 all species →	Family	DNA oxidative demethylase ALKBH2	Interproscan
IPR005123 all species →	Domain	Oxoglutarate/iron-dependent dioxygenase	Interproscan
IPR037151 all species →	Homologous_superfamily	Alpha-ketoglutarate-dependent dioxygenase AlkB-like superfamily	Interproscan
IPR027450 all species →	Domain	Alpha-ketoglutarate-dependent dioxygenase AlkB-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31573 all species →	ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ALKB HOMOLOG 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0006307 all species →	Biological Process	DNA alkylation repair	Interproscan
GO:0008198 all species →	Molecular Function	ferrous iron binding	Interproscan
GO:0035511 all species →	Biological Process	obsolete oxidative DNA demethylation	Interproscan
GO:0043734 all species →	Molecular Function	obsolete DNA-N1-methyladenine dioxygenase activity	Interproscan
GO:0051747 all species →	Molecular Function	cytosine C-5 DNA demethylase activity	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
K10859	ALKBH2; DNA oxidative demethylase	EC:1.14.11.33	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_001271-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

22.8Max TPM

2.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.78	6.44
polyp at pH7 6	18	17	3.11	5.84
coral polyp · control treatment	16	16	2.90	22.82
coral polyp · oil and dispersant treatment	16	16	1.42	10.07
coral polyp · oil treatment	16	16	1.77	3.61
coral polyp · dispersant treatment	16	16	0.77	2.10
Polyp	10	10	2.34	6.60

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.44
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.80
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.36
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.70
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.38
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.93
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.66
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.47
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.84
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.58
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.54
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.40
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.27
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.97
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.80
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.70
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.61
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.18
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.91
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.82
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.92
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.47
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.72
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.39
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.77
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.31
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.95
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.24
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.16
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.61
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.63
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.06
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.94
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.44
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.15
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.11
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.63
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.61
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.99
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.87
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.35
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.68
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.14

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.