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Alkbh2 alkB homolog 2, alpha-ketoglutarate-dependent dioxygenase [ Mus musculus (house mouse) ]

Gene ID: 231642, updated on 18-Sep-2024

Summary

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Official Symbol
Alkbh2provided by MGI
Official Full Name
alkB homolog 2, alpha-ketoglutarate-dependent dioxygenaseprovided by MGI
Primary source
MGI:MGI:2141032
See related
Ensembl:ENSMUSG00000044339 AllianceGenome:MGI:2141032
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Abh2; mABH2; 9530023G02
Summary
Enables 2-oxoglutarate-dependent dioxygenase activity and cytosine C-5 DNA demethylase activity. Predicted to be involved in DNA dealkylation involved in DNA repair and oxidative DNA demethylation. Predicted to act upstream of or within cellular response to DNA damage stimulus. 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
Ubiquitous expression in ovary adult (RPKM 4.9), CNS E11.5 (RPKM 4.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Alkbh2 in Genome Data Viewer
Location:
5 F; 5 55.97 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (114261987..114268782, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (114123926..114131233, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene SV2 related protein Neighboring gene predicted gene 16108 Neighboring gene ubiquitin specific peptidase 30 Neighboring gene STARR-seq mESC enhancer starr_14065 Neighboring gene legumain pseudogene Neighboring gene uracil DNA glycosylase Neighboring gene acetyl-Coenzyme A carboxylase beta Neighboring gene STARR-seq mESC enhancer starr_14069 Neighboring gene STARR-seq mESC enhancer starr_14070 Neighboring gene forkhead box N4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Alkbh2 protects against lethality and mutation in primary mouse embryonic fibroblasts. Nay SL, et al. DNA Repair (Amst), 2012 May 1. PMID 22429847, Free PMC Article
  2. Repair deficient mice reveal mABH2 as the primary oxidative demethylase for repairing 1meA and 3meC lesions in DNA. Ringvoll J, et al. EMBO J, 2006 May 17. PMID 16642038, Free PMC Article
  3. ALKBH7 drives a tissue and sex-specific necrotic cell death response following alkylation-induced damage. Jordan JJ, et al. Cell Death Dis, 2017 Jul 20. PMID 28726787, Free PMC Article
  4. DNA repair is indispensable for survival after acute inflammation. Calvo JA, et al. J Clin Invest, 2012 Jul. PMID 22684101, Free PMC Article
  5. Roles of Aag, Alkbh2, and Alkbh3 in the Repair of Carboxymethylated and Ethylated Thymidine Lesions. You C, et al. ACS Chem Biol, 2016 May 20. PMID 26930515, Free PMC Article

See all (23) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. These results revealed that N3-ethylthymidine , but not other DNA lesions, could be repaired by Alkbh2 and Alkbh3 in mammalian cells.
    Title: Roles of Aag, Alkbh2, and Alkbh3 in the Repair of Carboxymethylated and Ethylated Thymidine Lesions.
  2. ALKBH2 and ALKBH3 provide cancer protection similar to that of the DNA glycosylase AAG and display apparent epistasis with Aag
    Title: DNA repair is indispensable for survival after acute inflammation.
  3. Although both Alkbh2 and Alkbh3 can protect against methyl methanesulfonate-induced cell death, only Alkbh2 shows statistically significant protection against mutations following treatment with this exogenous methylating agent.
    Title: Alkbh2 protects against lethality and mutation in primary mouse embryonic fibroblasts.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables broad specificity oxidative DNA demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables broad specificity oxidative DNA demethylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables broad specificity oxidative DNA demethylase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables broad specificity oxidative DNA demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables broad specificity oxidative DNA demethylase activity ISS
Inferred from Sequence or Structural Similarity
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 IDA
Inferred from Direct Assay
more info
 PubMed 
enables cytosine C-5 DNA demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables cytosine C-5 DNA demethylase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
NOT enables endonuclease activity IDA
Inferred from Direct Assay
more info
 PubMed 
NOT enables exonuclease activity IDA
Inferred from Direct Assay
more info
 PubMed 
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 ferrous iron binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables rDNA binding IEA
Inferred from Electronic Annotation
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 IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in DNA alkylation repair ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA alkylation repair ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
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

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Preferred Names
DNA oxidative demethylase ALKBH2
Names
alkB, alkylation repair homolog 2
alkylated DNA repair protein alkB homolog 2
alpha-ketoglutarate-dependent dioxygenase alkB homolog 2
NP_001346869.1
NP_001346870.1
NP_001411579.1
NP_001411580.1
NP_001411581.1
NP_001411582.1
NP_778181.2

NCBI Reference Sequences (RefSeq)

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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_001359940.2 → NP_001346869.1  DNA oxidative demethylase ALKBH2 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
    Source sequence(s)
    AC129080
    Consensus CDS
    CCDS19559.1
    UniProtKB/Swiss-Prot
    Q6P6J4, Q8C591
    Conserved Domains (1) summary
    pfam13532
    Location:50 → 232
    2OG-FeII_Oxy_2; 2OG-Fe(II) oxygenase superfamily

  2. NM_001359941.2 → NP_001346870.1  DNA oxidative demethylase ALKBH2 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
    Source sequence(s)
    AC129080
    Consensus CDS
    CCDS19559.1
    UniProtKB/Swiss-Prot
    Q6P6J4, Q8C591
    Related
    ENSMUSP00000107898.2, ENSMUST00000112279.2
    Conserved Domains (1) summary
    pfam13532
    Location:50 → 232
    2OG-FeII_Oxy_2; 2OG-Fe(II) oxygenase superfamily

  3. NM_001424650.1 → NP_001411579.1  DNA oxidative demethylase ALKBH2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC129080

  4. NM_001424651.1 → NP_001411580.1  DNA oxidative demethylase ALKBH2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC129080
    UniProtKB/Swiss-Prot
    Q6P6J4, Q8C591

  5. NM_001424652.1 → NP_001411581.1  DNA oxidative demethylase ALKBH2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC129080
    UniProtKB/Swiss-Prot
    Q6P6J4, Q8C591

  6. NM_001424653.1 → NP_001411582.1  DNA oxidative demethylase ALKBH2 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC129080

  7. NM_175016.4 → NP_778181.2  DNA oxidative demethylase ALKBH2 isoform 1

    See identical proteins and their annotated locations for NP_778181.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. All three variants encode the same protein.
    Source sequence(s)
    AC129080
    Consensus CDS
    CCDS19559.1
    UniProtKB/Swiss-Prot
    Q6P6J4, Q8C591
    Related
    ENSMUSP00000056043.7, ENSMUST00000053657.13
    Conserved Domains (1) summary
    pfam13532
    Location:50 → 232
    2OG-FeII_Oxy_2; 2OG-Fe(II) oxygenase superfamily

RNA

  1. NR_188821.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC129080

  2. NR_188822.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC129080

  3. NR_188823.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC129080

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    114261987..114268782 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6P6J4.1 GenPept UniProtKB/Swiss-Prot:Q6P6J4

Gene LinkOut

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

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