Gene detail

Detailed information of CAB4036623.1 in Paramuricea clavata

Genomic Location: pcla8_s025041:53...859
NR annotation: CAB4036623.1, DNA oxidative demethylase ALKBH2 [Paramuricea clavata]
Species Paramuricea clavata · 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
Q6P6J4	DNA oxidative demethylase ALKBH2 OS=Mus musculus OX=10090 GN=Alkbh2 PE=1 SV=1
Q6NS38	DNA oxidative demethylase ALKBH2 OS=Homo sapiens OX=9606 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
IPR037151 all species →	Homologous_superfamily	Alpha-ketoglutarate-dependent dioxygenase AlkB-like superfamily	Interproscan
IPR027450 all species →	Domain	Alpha-ketoglutarate-dependent dioxygenase AlkB-like	Interproscan
IPR005123 all species →	Domain	Oxoglutarate/iron-dependent dioxygenase	Interproscan
IPR032852 all species →	Family	DNA oxidative demethylase ALKBH2	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 CAB4036623.1 across 21 RNA-seq samples of Paramuricea clavata. 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.

21Samples

11TPM > 0

4Conditions

41.0Max TPM

5.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	5.29	27.01
apical branchlet · Temperature treatment at T0	6	4	6.41	20.64
apical branchlet · Temperature treatment at T25	5	2	8.27	41.02
apical branchlet · Control at T0	4	1	1.01	4.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	27.01
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.40
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.64
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.68
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	20.64
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	13.99
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.05
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.79
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	41.02
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.34
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	4.05
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 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.