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    Alkbh1 alkB homolog 1, histone H2A dioxygenase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362766, updated on 4-Jan-2025

    Summary

    Official Symbol
    Alkbh1provided by RGD
    Official Full Name
    alkB homolog 1, histone H2A dioxygenaseprovided by RGD
    Primary source
    RGD:1308327
    See related
    EnsemblRapid:ENSRNOG00000012264 AllianceGenome:RGD:1308327
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Alkbh
    Summary
    Predicted to enable several functions, including 2-oxoglutarate-dependent dioxygenase activity; class I DNA-(apurinic or apyrimidinic site) endonuclease activity; and ferrous iron binding activity. Predicted to be involved in several processes, including RNA modification; positive regulation of gene expression, epigenetic; and regulation of translation. Predicted to act upstream of or within several processes, including generation of neurons; in utero embryonic development; and negative regulation of neuron apoptotic process. Predicted to be located in several cellular components, including euchromatin; mitochondrion; and nucleoplasm. Predicted to be active in cytoplasm and nucleus. Orthologous to human ALKBH1 (alkB homolog 1, histone H2A dioxygenase). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Biased expression in Thymus (RPKM 101.0), Spleen (RPKM 87.6) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Alkbh1 in Genome Data Viewer
    Location:
    6q31
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (112799234..112819708, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (107068301..107088784, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (111456096..111476829, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene serine palmitoyltransferase, long chain base subunit 2 Neighboring gene uncharacterized LOC120103582 Neighboring gene uncharacterized LOC108351282 Neighboring gene uncharacterized LOC120103583 Neighboring gene U6 spliceosomal RNA Neighboring gene small nucleolar RNA, H/ACA box 58 Neighboring gene SRA stem-loop interacting RNA binding protein Neighboring gene SNW domain containing 1 Neighboring gene uncharacterized LOC134479240

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 2-oxoglutarate-dependent dioxygenase activity  
    enables broad specificity oxidative DNA demethylase activity  
    enables broad specificity oxidative DNA demethylase activity  
    enables chemoattractant activity  
    enables class I DNA-(apurinic or apyrimidinic site) endonuclease activity  
    enables ferrous iron binding  
    enables ferrous iron binding  
    enables oxidative RNA demethylase activity  
    enables oxidative RNA demethylase activity  
    enables tRNA binding  
    enables tRNA demethylase activity  
    Process Evidence Code Pubs
    involved_in DNA repair  
    acts_upstream_of_or_within cell differentiation  
    acts_upstream_of_or_within developmental growth  
    acts_upstream_of_or_within in utero embryonic development  
    acts_upstream_of_or_within negative regulation of neuron apoptotic process  
    acts_upstream_of_or_within neuron migration  
    acts_upstream_of_or_within neuron projection development  
    involved_in oxidative RNA demethylation  
    involved_in oxidative RNA demethylation  
    acts_upstream_of_or_within placenta development  
    involved_in positive chemotaxis  
    involved_in positive regulation of gene expression, epigenetic  
    acts_upstream_of_or_within regulation of gene expression  
    involved_in regulation of mitochondrial translation  
    involved_in regulation of translational elongation  
    involved_in regulation of translational initiation  
    involved_in regulation of translational initiation by tRNA modification  
    involved_in tRNA wobble cytosine modification  
    Component Evidence Code Pubs
    is_active_in cytoplasm  
    located_in endoplasmic reticulum  
    located_in euchromatin  
    located_in mitochondrion  
    located_in nucleoplasm  
    is_active_in nucleus  

    General protein information

    Preferred Names
    nucleic acid dioxygenase ALKBH1
    Names
    DNA demethylase ALKBH1
    alkB, alkylation repair homolog 1
    alkylated DNA repair protein alkB homolog 1
    NP_001382540.1
    XP_038968446.1

    NCBI Reference Sequences (RefSeq)

    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_001395611.2NP_001382540.1  nucleic acid dioxygenase ALKBH1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      D3Z8W2
      Related
      ENSRNOP00000062185.3, ENSRNOT00000016389.8
      Conserved Domains (1) summary
      cl21496
      Location:119289
      2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

    RNA

    1. NR_172646.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006

    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_086024.1 Reference GRCr8

      Range
      112799234..112819708 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039112518.2XP_038968446.1  nucleic acid dioxygenase ALKBH1 isoform X1

      UniProtKB/TrEMBL
      A6JEA5
      Conserved Domains (1) summary
      cl21496
      Location:23156
      2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily
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