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    Mbd1 methyl-CpG binding domain protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291439, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Mbd1provided by RGD
    Official Full Name
    methyl-CpG binding domain protein 1provided by RGD
    Primary source
    RGD:1305980
    See related
    EnsemblRapid:ENSRNOG00000024104 AllianceGenome:RGD:1305980
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables chromatin binding activity. Involved in several processes, including generation of neurons; response to cocaine; and response to estradiol. Located in chromatin; cytoplasm; and nucleus. Biomarker of transient cerebral ischemia and visual epilepsy. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human MBD1 (methyl-CpG binding domain protein 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Adrenal (RPKM 176.9), Spleen (RPKM 103.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    18q12.2
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (70145093..70159744)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (67869870..67884501)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (70248568..70263190)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene CXXC finger protein 1 Neighboring gene ribosomal protein S17, pseudogene 3 Neighboring gene cilia and flagella associated protein 53 Neighboring gene ribosomal protein L37A like 4 Neighboring gene small nucleolar RNA SNORA22

    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. Adolescent chronic intermittent toluene inhalation dynamically regulates the transcriptome and neuronal methylome within the rat medial prefrontal cortex. Dick ALW, et al. Addict Biol, 2021 May. PMID 32638524
    2. Methyl-CpG binding domain 1 gene polymorphisms and lung cancer risk in a Chinese population. Liu H, et al. Biomarkers, 2008 Sep. PMID 18668384
    3. The loss of methyl-CpG binding protein 1 leads to autism-like behavioral deficits. Allan AM, et al. Hum Mol Genet, 2008 Jul 1. PMID 18385101, Free PMC Article
    4. Methyl-CpG binding proteins are involved in restricting differentiation plasticity in neurons. Setoguchi H, et al. J Neurosci Res, 2006 Oct. PMID 16881068
    5. Methyl-CpG binding domain 1 gene polymorphisms and risk of primary lung cancer. Jang JS, et al. Cancer Epidemiol Biomarkers Prev, 2005 Nov. PMID 16284366

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Adolescent chronic intermittent toluene inhalation dynamically regulates the transcriptome and neuronal methylome within the rat medial prefrontal cortex.
      Title: Adolescent chronic intermittent toluene inhalation dynamically regulates the transcriptome and neuronal methylome within the rat medial prefrontal cortex.
    2. Mbd1 and DNA methylation-mediated epigenetic mechanism regulated the expression of stem cell mitogen Fgf-2 in adult neural stem/progenitor cells.
      Title: Epigenetic regulation of the stem cell mitogen Fgf-2 by Mbd1 in adult neural stem/progenitor cells.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables double-stranded methylated DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methyl-CpG binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables unmethylated CpG binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in epigenetic regulation of gene expression IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in negative regulation of astrocyte differentiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in neuron differentiation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to cocaine IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to estradiol IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to nutrient levels IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to organic cyclic compound IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to xenobiotic stimulus IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in ventricular cardiac muscle tissue development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of chromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of heterochromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    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 1

    NCBI Reference Sequences (RefSeq)

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    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_001011924.1 → NP_001011924.1  methyl-CpG-binding domain protein 1

      See identical proteins and their annotated locations for NP_001011924.1

      Status: PROVISIONAL

      Source sequence(s)
      BC081932
      UniProtKB/TrEMBL
      A0A8I6GMJ2, Q66HB8
      Conserved Domains (2) summary
      smart00391
      Location:3 → 72
      MBD; Methyl-CpG binding domain
      pfam02008
      Location:186 → 233
      zf-CXXC; CXXC zinc finger domain

    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_086036.1 Reference GRCr8

      Range
      70145093..70159744
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006254911.5 → XP_006254973.1  methyl-CpG-binding domain protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I6A3W5, A0A8I6AS94
      Related
      ENSRNOP00000097211.2, ENSRNOT00000113558.2
      Conserved Domains (2) summary
      cd01396
      Location:5 → 66
      MeCP2_MBD; MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family 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 methylated DNA by a methyl-CpG-binding ...
      pfam02008
      Location:349 → 393
      zf-CXXC; CXXC zinc finger domain

    2. XM_006254913.5 → XP_006254975.1  methyl-CpG-binding domain protein 1 isoform X8

      UniProtKB/TrEMBL
      A0A8I6GMJ2
      Related
      ENSRNOP00000037640.5, ENSRNOT00000032202.6
      Conserved Domains (2) summary
      cd01396
      Location:5 → 66
      MeCP2_MBD; MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family 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 methylated DNA by a methyl-CpG-binding ...
      pfam02008
      Location:235 → 280
      zf-CXXC; CXXC zinc finger domain

    3. XM_039096640.2 → XP_038952568.1  methyl-CpG-binding domain protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A8I6AS94
      Conserved Domains (2) summary
      cd01396
      Location:5 → 66
      MeCP2_MBD; MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family 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 methylated DNA by a methyl-CpG-binding ...
      pfam02008
      Location:347 → 393
      zf-CXXC; CXXC zinc finger domain

    4. XM_006254909.5 → XP_006254971.1  methyl-CpG-binding domain protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AS94
      Related
      ENSRNOP00000019573.7, ENSRNOT00000019573.9
      Conserved Domains (2) summary
      cd01396
      Location:5 → 66
      MeCP2_MBD; MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family 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 methylated DNA by a methyl-CpG-binding ...
      pfam02008
      Location:349 → 393
      zf-CXXC; CXXC zinc finger domain

    5. XM_017600883.3 → XP_017456372.1  methyl-CpG-binding domain protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AS94

    6. XM_063277172.1 → XP_063133242.1  methyl-CpG-binding domain protein 1 isoform X11

      UniProtKB/TrEMBL
      A0A8I6AS94

    7. XM_006254910.5 → XP_006254972.1  methyl-CpG-binding domain protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AS94
      Conserved Domains (2) summary
      cd01396
      Location:5 → 66
      MeCP2_MBD; MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family 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 methylated DNA by a methyl-CpG-binding ...
      pfam02008
      Location:348 → 392
      zf-CXXC; CXXC zinc finger domain

    8. XM_006254914.5 → XP_006254976.1  methyl-CpG-binding domain protein 1 isoform X9

      UniProtKB/TrEMBL
      A0A8I5ZMU8
      Related
      ENSRNOP00000078508.2, ENSRNOT00000102132.2
      Conserved Domains (2) summary
      cd01396
      Location:5 → 66
      MeCP2_MBD; MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family 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 methylated DNA by a methyl-CpG-binding ...
      pfam02008
      Location:235 → 280
      zf-CXXC; CXXC zinc finger domain

    9. XM_017600882.3 → XP_017456371.1  methyl-CpG-binding domain protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A8I6AS94

    10. XM_063277170.1 → XP_063133240.1  methyl-CpG-binding domain protein 1 isoform X7

      UniProtKB/TrEMBL
      A0A8I6AS94

    11. XM_063277171.1 → XP_063133241.1  methyl-CpG-binding domain protein 1 isoform X10

      UniProtKB/TrEMBL
      A0A8I5ZMU8

    RNA

    1. XR_361462.5 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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