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

Gene ID: 73503, updated on 5-Mar-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 act upstream of or within negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Orthologous to human MBD3L1 (methyl-CpG binding domain protein 3 like 1). [provided by Alliance of Genome Resources, Apr 2022]
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 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

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