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

    Gene ID: 231642, updated on 28-Oct-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 broad specificity oxidative DNA demethylase activity and cytosine C-5 DNA demethylase activity. Involved in DNA alkylation repair. Predicted to be located in nucleolus and nucleoplasm. Orthologous to human ALKBH2 (alkB homolog 2, alpha-ketoglutarate dependent dioxygenase). [provided by Alliance of Genome Resources, Oct 2024]
    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. DNA repair is indispensable for survival after acute inflammation. Calvo JA, et al. J Clin Invest, 2012 Jul. PMID 22684101, Free PMC Article
    4. 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
    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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