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

    Gene ID: 304578, updated on 9-Dec-2024

    Summary

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    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 demethylase activity; ferrous iron binding activity; and rDNA binding activity. Predicted to be 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, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 54.1), Liver (RPKM 36.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Alkbh2 in Genome Data Viewer
    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: 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

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    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

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    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

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    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)

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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_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

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