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    Mbd1 methyl-CpG binding domain protein 1 [ Mus musculus (house mouse) ]

    Gene ID: 17190, updated on 23-Jun-2021

    Summary

    Official Symbol
    Mbd1provided by MGI
    Official Full Name
    methyl-CpG binding domain protein 1provided by MGI
    Primary source
    MGI:MGI:1333811
    See related
    Ensembl:ENSMUSG00000024561
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    PCM; PCM1; Cxxc3
    Expression
    Ubiquitous expression in thymus adult (RPKM 15.4), genital fat pad adult (RPKM 13.7) and 28 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Mbd1 in Genome Data Viewer
    Location:
    18 E2; 18 50.7 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (74400676..74415808)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (74267605..74282737)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 18 NC_000084.5 (74427942..74442338)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene CXXC finger 1 (PHD domain) Neighboring gene ribosomal protein L10A pseudogene Neighboring gene cilia and flagella associated protein 53 Neighboring gene fatty acid-binding protein, epidermal pseudogene Neighboring gene predicted gene, 41773

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2)  1 citation
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables double-stranded methylated DNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables methyl-CpG binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    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 negative regulation of astrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in chromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in heterochromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    methyl-CpG-binding domain protein 1
    Names
    methyl-CpG-binding protein MBD1

    NCBI Reference Sequences (RefSeq)

    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_001357421.1NP_001344350.1  methyl-CpG-binding domain protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC147367, AI413704
      Conserved Domains (2) summary
      pfam02008
      Location:359403
      zf-CXXC; CXXC zinc finger domain
      pfam01429
      Location:172
      MBD; Methyl-CpG binding domain
    2. NM_001357422.1NP_001344351.1  methyl-CpG-binding domain protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC147367, AI413704
      Conserved Domains (1) summary
      pfam02008
      Location:164208
      zf-CXXC; CXXC zinc finger domain
    3. NM_001357423.1NP_001344352.1  methyl-CpG-binding domain protein 1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC147367, AF072240, AK004624, BY292779
      Consensus CDS
      CCDS89280.1
      Related
      ENSMUSP00000153428.2, ENSMUST00000224047.2
      Conserved Domains (2) summary
      pfam02008
      Location:359403
      zf-CXXC; CXXC zinc finger domain
      pfam01429
      Location:172
      MBD; Methyl-CpG binding domain
    4. NM_013594.3NP_038622.2  methyl-CpG-binding domain protein 1 isoform 1

      See identical proteins and their annotated locations for NP_038622.2

      Status: VALIDATED

      Source sequence(s)
      AC147367, AK004624, BY292779
      Consensus CDS
      CCDS50321.1
      UniProtKB/Swiss-Prot
      Q9Z2E2
      UniProtKB/TrEMBL
      A0A0R4J159
      Related
      ENSMUSP00000095137.4, ENSMUST00000097530.5
      Conserved Domains (2) summary
      pfam02008
      Location:243288
      zf-CXXC; CXXC zinc finger domain
      pfam01429
      Location:569
      MBD; Methyl-CpG binding domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000084.7 Reference GRCm39 C57BL/6J

      Range
      74400676..74415808
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006525705.3XP_006525768.1  methyl-CpG-binding domain protein 1 isoform X1

      Conserved Domains (2) summary
      pfam01429
      Location:172
      MBD; Methyl-CpG binding domain
      pfam02008
      Location:356402
      zf-CXXC; CXXC zinc finger domain
    2. XM_006525707.3XP_006525770.1  methyl-CpG-binding domain protein 1 isoform X3

      Conserved Domains (2) summary
      pfam01429
      Location:172
      MBD; Methyl-CpG binding domain
      pfam02008
      Location:314360
      zf-CXXC; CXXC zinc finger domain
    3. XM_006525709.3XP_006525772.1  methyl-CpG-binding domain protein 1 isoform X5

      Conserved Domains (2) summary
      pfam01429
      Location:172
      MBD; Methyl-CpG binding domain
      pfam02008
      Location:194241
      zf-CXXC; CXXC zinc finger domain
    4. XM_006525708.4XP_006525771.1  methyl-CpG-binding domain protein 1 isoform X4

      Related
      ENSMUSP00000153085.2, ENSMUST00000224332.2
      Conserved Domains (2) summary
      pfam01429
      Location:172
      MBD; Methyl-CpG binding domain
      pfam02008
      Location:243288
      zf-CXXC; CXXC zinc finger domain
    5. XM_017317847.2XP_017173336.1  methyl-CpG-binding domain protein 1 isoform X2

      Conserved Domains (2) summary
      pfam01429
      Location:172
      MBD; Methyl-CpG binding domain
      pfam02008
      Location:356402
      zf-CXXC; CXXC zinc finger domain
    6. XM_030250354.2XP_030106214.1  methyl-CpG-binding domain protein 1 isoform X7

      Conserved Domains (1) summary
      pfam02008
      Location:119165
      zf-CXXC; CXXC zinc finger domain
    7. XM_030250353.2XP_030106213.1  methyl-CpG-binding domain protein 1 isoform X6

      Conserved Domains (1) summary
      pfam02008
      Location:162208
      zf-CXXC; CXXC zinc finger domain
    8. XM_030250355.2XP_030106215.1  methyl-CpG-binding domain protein 1 isoform X8

      Conserved Domains (1) summary
      pfam02008
      Location:4893
      zf-CXXC; CXXC zinc finger domain
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