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Alkbh3 alkB homolog 3, alpha-ketoglutarate-dependent dioxygenase [ Mus musculus (house mouse) ]

Gene ID: 69113, updated on 24-Mar-2023

Summary

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Official Symbol
Alkbh3provided by MGI
Official Full Name
alkB homolog 3, alpha-ketoglutarate-dependent dioxygenaseprovided by MGI
Primary source
MGI:MGI:1916363
See related
Ensembl:ENSMUSG00000040174 AllianceGenome:MGI:1916363
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
Abh3; mABH3; 1700108H04Rik; 1810020C19Rik
Summary
Enables 2-oxoglutarate-dependent dioxygenase activity and cytosine C-5 DNA demethylase activity. Predicted to be involved in DNA dealkylation; cell population proliferation; and oxidative single-stranded RNA demethylation. Predicted to act upstream of or within cellular response to DNA damage stimulus. Predicted to be located in cytosol; mitochondrion; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human ALKBH3 (alkB homolog 3, alpha-ketoglutarate dependent dioxygenase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis adult (RPKM 12.8), bladder adult (RPKM 7.2) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Alkbh3 in Genome Data Viewer
Location:
2; 2 E1
Exon count:
13
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (93810969..93841188, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (93980624..94010824, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 39884 Neighboring gene predicted gene 13889 Neighboring gene alkB homolog 3, opposite strand 1 Neighboring gene hydroxysteroid (17-beta) dehydrogenase 12 Neighboring gene MIR670 host gene (non-protein coding) Neighboring gene predicted gene, 39885

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
  • 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. Transfer RNA demethylase ALKBH3 promotes cancer progression via induction of tRNA-derived small RNAs. Chen Z, et al. Nucleic Acids Res, 2019 Mar 18. PMID 30541109, Free PMC Article
  2. 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
  3. 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
  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 (25) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (2)  1 citation
  • Endonuclease-mediated (4) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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 DNA-N1-methyladenine dioxygenase activity ISO
Inferred from Sequence Orthology
more info
  
enables cytosine C-5 DNA demethylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables dioxygenase activity IEA
Inferred from Electronic Annotation
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 ISO
Inferred from Sequence Orthology
more info
  
enables mRNA N1-methyladenosine dioxygenase activity ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables oxidative DNA demethylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables oxidative DNA demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables oxidative RNA demethylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables oxidative RNA demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA dealkylation involved in DNA repair ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA repair ISO
Inferred from Sequence Orthology
more info
  
involved_in cell population proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in oxidative single-stranded DNA demethylation ISO
Inferred from Sequence Orthology
more info
  
involved_in oxidative single-stranded RNA demethylation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 

General protein information

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Preferred Names
alpha-ketoglutarate-dependent dioxygenase alkB homolog 3
Names
alkB, alkylation repair homolog 3
alkylated DNA repair protein alkB homolog 3
NP_081220.1
XP_006500186.1
XP_006500188.1
XP_006500189.1
XP_030107903.1
XP_036018426.1

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_001418679.1 → NP_001405608.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform a

    Status: VALIDATED

    Source sequence(s)
    AL772372

  2. NM_001418680.1 → NP_001405609.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform a

    Status: VALIDATED

    Source sequence(s)
    AL772372

  3. NM_001418682.1 → NP_001405611.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform a

    Status: VALIDATED

    Source sequence(s)
    AL772372

  4. NM_001418684.1 → NP_001405613.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform a

    Status: VALIDATED

    Source sequence(s)
    AL772372

  5. NM_001418685.1 → NP_001405614.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform a

    Status: VALIDATED

    Source sequence(s)
    AL772372

  6. NM_001418687.1 → NP_001405616.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform b

    Status: VALIDATED

    Source sequence(s)
    AL772372

  7. NM_001418689.1 → NP_001405618.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform b

    Status: VALIDATED

    Source sequence(s)
    AL772372

  8. NM_001418690.1 → NP_001405619.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform c

    Status: VALIDATED

    Source sequence(s)
    AL772372

  9. NM_001418692.1 → NP_001405621.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform c

    Status: VALIDATED

    Source sequence(s)
    AL772372

  10. NM_001418694.1 → NP_001405623.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform d

    Status: VALIDATED

    Source sequence(s)
    AL772372

  11. NM_001418696.1 → NP_001405625.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform e

    Status: VALIDATED

    Source sequence(s)
    AL772372

  12. NM_001418698.1 → NP_001405627.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform f

    Status: VALIDATED

    Source sequence(s)
    AL772372

  13. NM_001418699.1 → NP_001405628.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform f

    Status: VALIDATED

    Source sequence(s)
    AL772372

  14. NM_026944.2 → NP_081220.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform a

    See identical proteins and their annotated locations for NP_081220.1

    Status: VALIDATED

    Source sequence(s)
    AL772372
    Consensus CDS
    CCDS38184.1
    UniProtKB/Swiss-Prot
    Q8K1E6
    UniProtKB/TrEMBL
    A0A8C6HHQ1
    Related
    ENSMUSP00000038721.7, ENSMUST00000040005.13
    Conserved Domains (1) summary
    cl21496
    Location:90 → 275
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

RNA

  1. NR_184795.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772372

  2. NR_184796.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772372

  3. NR_184797.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772372

  4. NR_184798.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772372

  5. NR_184799.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772372

  6. NR_184800.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL772372

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    93810969..93841188 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006500126.5 → XP_006500189.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform X3

  2. XM_030252043.2 → XP_030107903.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform X3

  3. XM_006500123.4 → XP_006500186.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform X1

    UniProtKB/Swiss-Prot
    Q8K1E6
    UniProtKB/TrEMBL
    A0A8C6HHQ1
    Conserved Domains (1) summary
    cl21496
    Location:90 → 275
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

  4. XM_036162533.1 → XP_036018426.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform X4

    Conserved Domains (1) summary
    cl21496
    Location:12 → 134
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

  5. XM_006500125.4 → XP_006500188.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 isoform X2

    Related
    ENSMUSP00000122043.2, ENSMUST00000126378.8
    Conserved Domains (1) summary
    cl21496
    Location:90 → 220
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8K1E6.1 GenPept UniProtKB/Swiss-Prot:Q8K1E6

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