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    Mbd6 methyl-CpG binding domain protein 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362892, updated on 9-Dec-2024

    Summary

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    Symbol
    Mbd6provided by RGD
    Full Name
    methyl-CpG binding domain protein 6provided by RGD
    Primary source
    RGD:1311050
    See related
    EnsemblRapid:ENSRNOG00000006209 AllianceGenome:RGD:1311050
    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 chromatin binding activity. Predicted to be located in fibrillar center and nucleoplasm. Predicted to be active in chromocenter and nucleus. Human ortholog(s) of this gene implicated in autism spectrum disorder. Orthologous to human MBD6 (methyl-CpG binding domain protein 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 27.6), Spleen (RPKM 26.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Mbd6 in Genome Data Viewer
    Location:
    7q22
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (64992877..65001274, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (63107562..63115841, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (70571435..70580146, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene kinesin family member 5A Neighboring gene dynactin subunit 2 Neighboring gene DDIT3 upstream open reading frame protein Neighboring gene DNA-damage inducible transcript 3 Neighboring gene methionyl-tRNA synthetase 1 Neighboring gene Glyceraldehyde-3-phosphate dehydrogenase, pseudogene 23

    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. The human proteins MBD5 and MBD6 associate with heterochromatin but they do not bind methylated DNA. Laget S, et al. PLoS One, 2010 Aug 6. PMID 20700456, Free PMC Article
    2. The expanding role of MBD genes in autism: identification of a MECP2 duplication and novel alterations in MBD5, MBD6, and SETDB1. Cukier HN, et al. Autism Res, 2012 Dec. PMID 23055267, Free PMC Article
    3. FMRP recruitment of β-catenin to the translation pre-initiation complex represses translation. Ehyai S, et al. EMBO Rep, 2018 Dec. PMID 30361391, Free PMC Article
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. 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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    NOT enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in chromocenter IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in chromocenter ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in fibrillar center IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in fibrillar center 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
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    methyl-CpG-binding domain protein 6
    Names
    WAS/WASL-interacting protein family member 1-like

    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_001170566.2 → NP_001164037.2  methyl-CpG-binding domain protein 6

      See identical proteins and their annotated locations for NP_001164037.2

      Status: VALIDATED

      Source sequence(s)
      BI296976, CB777944, DY314707, JAXUCZ010000007
      UniProtKB/TrEMBL
      D3ZCX1
      Related
      ENSRNOP00000008854.7, ENSRNOT00000008854.8
      Conserved Domains (1) summary
      cl00110
      Location:21 → 84
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...

    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_086025.1 Reference GRCr8

      Range
      64992877..65001274 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039079488.2 → XP_038935416.1  methyl-CpG-binding domain protein 6 isoform X1

      UniProtKB/TrEMBL
      D3ZCX1
      Conserved Domains (2) summary
      PHA03247
      Location:394 → 890
      PHA03247; large tegument protein UL36; Provisional
      cl00110
      Location:21 → 84
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...

    2. XM_017594925.2 → XP_017450414.1  methyl-CpG-binding domain protein 6 isoform X1

      UniProtKB/TrEMBL
      D3ZCX1
      Conserved Domains (2) summary
      PHA03247
      Location:394 → 890
      PHA03247; large tegument protein UL36; Provisional
      cl00110
      Location:21 → 84
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...

    3. XM_008765407.4 → XP_008763629.1  methyl-CpG-binding domain protein 6 isoform X2

      See identical proteins and their annotated locations for XP_008763629.1

      UniProtKB/TrEMBL
      D3ZCX1
      Conserved Domains (1) summary
      cl00110
      Location:21 → 84
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...

    4. XM_008765404.4 → XP_008763626.1  methyl-CpG-binding domain protein 6 isoform X1

      See identical proteins and their annotated locations for XP_008763626.1

      UniProtKB/TrEMBL
      D3ZCX1
      Conserved Domains (2) summary
      PHA03247
      Location:394 → 890
      PHA03247; large tegument protein UL36; Provisional
      cl00110
      Location:21 → 84
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...

    5. XM_063263801.1 → XP_063119871.1  methyl-CpG-binding domain protein 6 isoform X1

      UniProtKB/TrEMBL
      D3ZCX1

    6. XM_008765405.4 → XP_008763627.1  methyl-CpG-binding domain protein 6 isoform X1

      See identical proteins and their annotated locations for XP_008763627.1

      UniProtKB/TrEMBL
      D3ZCX1
      Conserved Domains (2) summary
      PHA03247
      Location:394 → 890
      PHA03247; large tegument protein UL36; Provisional
      cl00110
      Location:21 → 84
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...

    7. XM_006241463.5 → XP_006241525.1  methyl-CpG-binding domain protein 6 isoform X1

      See identical proteins and their annotated locations for XP_006241525.1

      UniProtKB/TrEMBL
      D3ZCX1
      Conserved Domains (2) summary
      PHA03247
      Location:394 → 890
      PHA03247; large tegument protein UL36; Provisional
      cl00110
      Location:21 → 84
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...

    8. XM_063263802.1 → XP_063119872.1  methyl-CpG-binding domain protein 6 isoform X3

      UniProtKB/TrEMBL
      D3ZCX1

    RNA

    1. XR_010053002.1 RNA Sequence

    2. XR_355570.5 RNA Sequence

    3. XR_355568.5 RNA Sequence

    4. XR_355569.5 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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