U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Alkbh6 alkB homolog 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 292780, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Symbol
    Alkbh6provided by RGD
    Full Name
    alkB homolog 6provided by RGD
    Primary source
    RGD:1566318
    See related
    EnsemblRapid:ENSRNOG00000025216 AllianceGenome:RGD:1566318
    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
    Summary
    Predicted to enable metal ion binding activity. Predicted to be located in focal adhesion and nucleoplasm. Predicted to be active in nucleus. Orthologous to human ALKBH6 (alkB homolog 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 117.3), Testes (RPKM 104.2) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Alkbh6 in Genome Data Viewer
    Location:
    1q21
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (94690979..94696429)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (85563511..85568977)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (88766872..88772243)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene THAP domain containing 8 Neighboring gene uncharacterized LOC120096980 Neighboring gene CAP-GLY domain containing linker protein 3 Neighboring gene spectrin repeat containing nuclear envelope family member 4 Neighboring gene succinate dehydrogenase complex assembly factor 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Repair of methylation damage in DNA and RNA by mammalian AlkB homologues. Lee DH, et al. J Biol Chem, 2005 Nov 25. PMID 16174769
    2. 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
    3. 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

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC112693

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    NOT enables 2-oxoglutarate-dependent dioxygenase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in focal adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in focal adhesion 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
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    alpha-ketoglutarate-dependent dioxygenase alkB homolog 6
    Names
    alkB, alkylation repair homolog 6
    alkylated DNA repair protein alkB homolog 6
    probable alpha-ketoglutarate-dependent dioxygenase ABH6
    NP_001120922.1
    XP_038960415.1
    XP_063139690.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001127450.1 → NP_001120922.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 6

      See identical proteins and their annotated locations for NP_001120922.1

      Status: VALIDATED

      Source sequence(s)
      BC082048, CB581428
      UniProtKB/TrEMBL
      A6J9W2, G3V9E2
      Related
      ENSRNOP00000043754.3, ENSRNOT00000051259.5
      Conserved Domains (1) summary
      cl21496
      Location:24 → 224
      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_086019.1 Reference GRCr8

      Range
      94690979..94696429
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039104487.2 → XP_038960415.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 6 isoform X2

    2. XM_063283620.1 → XP_063139690.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 6 isoform X1

    RNA

    1. XR_005501802.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools