U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Alkbh2 alkB homolog 2, alpha-ketoglutarate-dependent dioxygenase [ Rattus norvegicus (Norway rat) ]

Gene ID: 304578, updated on 17-Aug-2024

Summary

Go to the top of the page Help
Official Symbol
Alkbh2provided by RGD
Official Full Name
alkB homolog 2, alpha-ketoglutarate-dependent dioxygenaseprovided by RGD
Primary source
RGD:1306377
See related
EnsemblRapid:ENSRNOG00000028584 AllianceGenome:RGD:1306377
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1306377
Summary
Predicted to enable DNA-N1-methyladenine dioxygenase activity; cytosine C-5 DNA demethylase activity; and ferrous iron binding activity. Predicted to be involved in DNA dealkylation involved in DNA repair and oxidative DNA demethylation. Predicted to be located in nucleoplasm. Orthologous to human ALKBH2 (alkB homolog 2, alpha-ketoglutarate dependent dioxygenase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 54.1), Liver (RPKM 36.2) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
12q16
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (48156825..48161489)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (42494187..42500929)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (48257575..48262244)

Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134481305 Neighboring gene acetyl-CoA carboxylase beta Neighboring gene legumain pseudogene Neighboring gene uracil-DNA glycosylase Neighboring gene ubiquitin specific peptidase 30 Neighboring gene SV2 related protein

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Crystal structures of DNA/RNA repair enzymes AlkB and ABH2 bound to dsDNA. Yang CG, et al. Nature, 2008 Apr 24. PMID 18432238, Free PMC Article
  2. Repair of methylation damage in DNA and RNA by mammalian AlkB homologues. Lee DH, et al. J Biol Chem, 2005 Nov 25. PMID 16174769
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity ISO
Inferred from Sequence Orthology
more info
  
enables broad specificity oxidative DNA demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables broad specificity oxidative DNA demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables cytosine C-5 DNA demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cytosine C-5 DNA demethylase activity ISO
Inferred from Sequence Orthology
more info
  
NOT enables endonuclease activity ISO
Inferred from Sequence Orthology
more info
  
NOT enables exonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables ferrous iron binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ferrous iron binding ISO
Inferred from Sequence Orthology
more info
  
enables rDNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA alkylation repair IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in DNA alkylation repair ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
DNA oxidative demethylase ALKBH2
Names
alkB, alkylation repair homolog 2
alpha-ketoglutarate-dependent dioxygenase alkB homolog 2
NP_001119745.1
XP_006249560.1
XP_038945448.1
XP_038945450.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001126273.1 → NP_001119745.1  DNA oxidative demethylase ALKBH2

    See identical proteins and their annotated locations for NP_001119745.1

    Status: PROVISIONAL

    Source sequence(s)
    BC166547
    UniProtKB/TrEMBL
    B2GV68
    Conserved Domains (1) summary
    cl21496
    Location:50 → 232
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086030.1 Reference GRCr8

    Range
    48156825..48161489
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006249498.5 → XP_006249560.1  DNA oxidative demethylase ALKBH2 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K5G5
    Related
    ENSRNOP00000073418.1, ENSRNOT00000090277.3
    Conserved Domains (1) summary
    pfam13532
    Location:98 → 280
    2OG-FeII_Oxy_2; 2OG-Fe(II) oxygenase superfamily

  2. XM_039089522.2 → XP_038945450.1  DNA oxidative demethylase ALKBH2 isoform X3

    UniProtKB/TrEMBL
    A6J211

  3. XM_039089520.2 → XP_038945448.1  DNA oxidative demethylase ALKBH2 isoform X2

    UniProtKB/TrEMBL
    B2GV68
    Conserved Domains (1) summary
    cl21496
    Location:50 → 232
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools