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

Gene ID: 292780, updated on 5-Mar-2024

Summary

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Symbol
Alkbh6provided by RGD
Full Name
alkB homolog 6provided by RGD
Primary source
RGD:1566318
See related
Ensembl: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 be located in focal adhesion and nucleoplasm. Orthologous to human ALKBH6 (alkB homolog 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Adrenal (RPKM 117.3), Testes (RPKM 104.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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

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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. 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

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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

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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)

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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_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, ENSRNOT00000051259.4
    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

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