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Alkbh5 alkB homolog 5, RNA demethylase [ Mus musculus (house mouse) ]

Gene ID: 268420, updated on 22-Apr-2024

Summary

Official Symbol
Alkbh5provided by MGI
Official Full Name
alkB homolog 5, RNA demethylaseprovided by MGI
Primary source
MGI:MGI:2144489
See related
Ensembl:ENSMUSG00000042650 AllianceGenome:MGI:2144489
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
Abh5; Ofoxd; E130207K11
Summary
Enables mRNA N6-methyladenosine dioxygenase activity. Involved in oxidative single-stranded RNA demethylation; regulation of mRNA stability; and spermatogenesis. Located in nuclear speck. Is expressed in brain. Orthologous to human ALKBH5 (alkB homolog 5, RNA demethylase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in adrenal adult (RPKM 20.2), ovary adult (RPKM 17.5) and 28 other tissues See more
Orthologs
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Genomic context

Location:
11 B2; 11 37.81 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (60428509..60449338)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (60537683..60558512)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:60267901-60268133 Neighboring gene developmentally regulated GTP binding protein 2 Neighboring gene myosin XVA Neighboring gene predicted gene, 51901 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:60350718-60350827 Neighboring gene predicted gene, 53694 Neighboring gene ubiquitin-60S ribosomal protein L40 pseudogene Neighboring gene ubiquitin-60S ribosomal protein L40 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity ISO
Inferred from Sequence Orthology
more info
 
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
 
NOT enables lysophospholipase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables mRNA N6-methyladenosine dioxygenase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables mRNA N6-methyladenosine dioxygenase activity ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables molecular condensate scaffold activity ISO
Inferred from Sequence Orthology
more info
 
enables oxidative RNA demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of gamma-delta T cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in mRNA destabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in mRNA destabilization ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in mRNA export from nucleus ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in mRNA processing ISO
Inferred from Sequence Orthology
more info
 
involved_in non-membrane-bounded organelle assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of mRNA stability IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of translation ISO
Inferred from Sequence Orthology
more info
 
involved_in response to hypoxia ISO
Inferred from Sequence Orthology
more info
 
involved_in spermatogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear speck IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in nuclear speck 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
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
is_active_in paraspeckles ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
RNA demethylase ALKBH5
Names
alkB, alkylation repair homolog 5
alkylated DNA repair protein alkB homolog 5
alpha-ketoglutarate-dependent dioxygenase alkB homolog 5
oxoglutarate and iron-dependent oxygenase domain containing
probable alpha-ketoglutarate-dependent dioxygenase ABH5
NP_766531.2

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_172943.4NP_766531.2  RNA demethylase ALKBH5

    See identical proteins and their annotated locations for NP_766531.2

    Status: VALIDATED

    Source sequence(s)
    AL596386
    Consensus CDS
    CCDS24794.1
    UniProtKB/Swiss-Prot
    Q3TSG4, Q80US0, Q8BKB9, Q8BKC1
    Related
    ENSMUSP00000049116.4, ENSMUST00000044250.4
    Conserved Domains (1) summary
    cl21496
    Location:137271
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    60428509..60449338
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)