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    Mbd3l1 methyl-CpG binding domain protein 3-like 1 [ Mus musculus (house mouse) ]

    Gene ID: 73503, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Mbd3l1provided by MGI
    Official Full Name
    methyl-CpG binding domain protein 3-like 1provided by MGI
    Primary source
    MGI:MGI:1920753
    See related
    Ensembl:ENSMUSG00000038691 AllianceGenome:MGI:1920753
    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
    Mbd3l; 1700070G05Rik; 1700095H13Rik
    Summary
    Predicted to enable methyl-CpG binding activity. Predicted to be involved in DNA methylation-dependent heterochromatin formation and negative regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human MBD3L1 (methyl-CpG binding domain protein 3 like 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward testis adult (RPKM 42.8) See more
    Orthologs
    human all
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    Genomic context

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    See Mbd3l1 in Genome Data Viewer
    Location:
    9 A2; 9 7.06 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (18389655..18396594)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (18478359..18485298)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_23418 Neighboring gene methyl-CpG binding domain protein 3-like 2 Neighboring gene STARR-seq mESC enhancer starr_23419 Neighboring gene zinc finger protein 558 Neighboring gene STARR-seq mESC enhancer starr_23420 Neighboring gene mucin 16 Neighboring gene predicted gene, 39297 Neighboring gene predicted gene, 24546

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Haploid male germ cell- and oocyte-specific Mbd3l1 and Mbd3l2 genes are dispensable for early development, fertility, and zygotic DNA demethylation in the mouse. Jin SG, et al. Dev Dyn, 2008 Nov. PMID 18942147, Free PMC Article
    2. MBD3L1 and MBD3L2, two new proteins homologous to the methyl-CpG-binding proteins MBD2 and MBD3: characterization of MBD3L1 as a testis-specific transcriptional repressor. Jiang CL, et al. Genomics, 2002 Dec. PMID 12504854
    3. MBD3L1 is a transcriptional repressor that interacts with methyl-CpG-binding protein 2 (MBD2) and components of the NuRD complex. Jiang CL, et al. J Biol Chem, 2004 Dec 10. PMID 15456747
    4. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Mbd3l1 and Mbd3l2 are not involved in genome-wide demethylation of paternal genomes in mouse zygotes and are dispensable for normal development.
      Title: Haploid male germ cell- and oocyte-specific Mbd3l1 and Mbd3l2 genes are dispensable for early development, fertility, and zygotic DNA demethylation in the mouse.
    2. interacts with methyl-CpG-binding protein 2 (MBD2) and components of the NuRD complex
      Title: MBD3L1 is a transcriptional repressor that interacts with methyl-CpG-binding protein 2 (MBD2) and components of the NuRD complex.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables methyl-CpG binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    NOT enables methyl-CpG binding ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA methylation-dependent constitutive heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    methyl-CpG-binding domain protein 3-like 1
    Names
    MBD3-like 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_001357418.1 → NP_001344347.1  methyl-CpG-binding domain protein 3-like 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
      Source sequence(s)
      AC162941, AK018931, BC049738
      Consensus CDS
      CCDS22845.1
      UniProtKB/Swiss-Prot
      Q6P8W5, Q9D2S3, Q9D9H3
      UniProtKB/TrEMBL
      Q0P5Y0
      Related
      ENSMUSP00000149619.2, ENSMUST00000213625.2
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:10 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    2. NM_001357419.1 → NP_001344348.1  methyl-CpG-binding domain protein 3-like 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
      Source sequence(s)
      AC162941
      Consensus CDS
      CCDS22845.1
      UniProtKB/Swiss-Prot
      Q6P8W5, Q9D2S3, Q9D9H3
      UniProtKB/TrEMBL
      Q0P5Y0
      Related
      ENSMUSP00000149425.2, ENSMUST00000215255.2
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:10 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    3. NM_028557.3 → NP_082833.1  methyl-CpG-binding domain protein 3-like 1

      See identical proteins and their annotated locations for NP_082833.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. All three variants encode the same protein.
      Source sequence(s)
      AC162941, AK006927, BC049738
      Consensus CDS
      CCDS22845.1
      UniProtKB/Swiss-Prot
      Q6P8W5, Q9D2S3, Q9D9H3
      UniProtKB/TrEMBL
      Q0P5Y0
      Related
      ENSMUSP00000063957.4, ENSMUST00000069218.5
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:10 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      18389655..18396594
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D9H3.1 GenPept UniProtKB/Swiss-Prot:Q9D9H3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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