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

Gene ID: 362892, updated on 2-Nov-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, Nov 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 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

  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

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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