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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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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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