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    Mbd3l1 methyl-CpG binding domain protein 3-like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300389, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Mbd3l1provided by RGD
    Official Full Name
    methyl-CpG binding domain protein 3-like 1provided by RGD
    Primary source
    RGD:1308259
    See related
    EnsemblRapid:ENSRNOG00000006363 AllianceGenome:RGD:1308259
    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
    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, Dec 2024]
    Expression
    Restricted expression toward (RPKM 96.8) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Mbd3l1 in Genome Data Viewer
    Location:
    8q13
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (24426865..24436687)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (16150539..16160463)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (18428438..18434722)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene methyl-CpG binding domain protein 3-like 2, pseudogene 1 Neighboring gene uncharacterized LOC120094087 Neighboring gene mucin 16, cell surface associated Neighboring gene olfactory receptor family 1 subfamily M member 1

    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
    • 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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables methyl-CpG binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    methyl-CpG-binding domain protein 3-like 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_001106803.1 → NP_001100273.1  methyl-CpG-binding domain protein 3-like 1

      See identical proteins and their annotated locations for NP_001100273.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473993
      UniProtKB/TrEMBL
      A6JNF2, D3ZQM6
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:8 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    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_086026.1 Reference GRCr8

      Range
      24426865..24436687
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017595527.3 → XP_017451016.1  methyl-CpG-binding domain protein 3-like 1 isoform X1

      UniProtKB/TrEMBL
      A6JNF2, D3ZQM6
      Related
      ENSRNOP00000103169.1, ENSRNOT00000166337.1
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:8 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    2. XM_039080995.2 → XP_038936923.1  methyl-CpG-binding domain protein 3-like 1 isoform X1

      UniProtKB/TrEMBL
      A6JNF2, D3ZQM6
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:8 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    3. XM_017595526.3 → XP_017451015.1  methyl-CpG-binding domain protein 3-like 1 isoform X1

      UniProtKB/TrEMBL
      A6JNF2, D3ZQM6
      Related
      ENSRNOP00000106831.1, ENSRNOT00000152727.1
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:8 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    4. XM_006242571.5 → XP_006242633.1  methyl-CpG-binding domain protein 3-like 1 isoform X1

      See identical proteins and their annotated locations for XP_006242633.1

      UniProtKB/TrEMBL
      A6JNF2, D3ZQM6
      Related
      ENSRNOP00000008341.2, ENSRNOT00000008341.5
      Conserved Domains (2) summary
      pfam14048
      Location:79 → 166
      MBD_C; C-terminal domain of methyl-CpG binding protein 2 and 3
      pfam16564
      Location:8 → 74
      MBDa; p55-binding region of Methyl-CpG-binding domain proteins MBD

    5. XM_063265046.1 → XP_063121116.1  methyl-CpG-binding domain protein 3-like 1 isoform X1

      UniProtKB/TrEMBL
      A6JNF2, D3ZQM6
      Related
      ENSRNOP00000110620.1, ENSRNOT00000169889.1
    Nucleotide Protein Strain
    Heading Accession and Version

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