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    L3mbtl3 L3MBTL histone methyl-lysine binding protein 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309550, updated on 9-Dec-2024

    Summary

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    Official Symbol
    L3mbtl3provided by RGD
    Official Full Name
    L3MBTL histone methyl-lysine binding protein 3provided by RGD
    Primary source
    RGD:1305474
    See related
    EnsemblRapid:ENSRNOG00000011720 AllianceGenome:RGD:1305474
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable several functions, including histone binding activity; identical protein binding activity; and methylation-dependent protein binding activity. Predicted to be involved in negative regulation of DNA-templated transcription; positive regulation of ubiquitin-dependent protein catabolic process; and regulation of DNA methylation-dependent heterochromatin formation. Predicted to act upstream of or within erythrocyte maturation; granulocyte differentiation; and macrophage differentiation. Predicted to be located in nucleolus and nucleoplasm. Predicted to be active in nucleus. Orthologous to human L3MBTL3 (L3MBTL histone methyl-lysine binding protein 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 77.3), Thymus (RPKM 56.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See L3mbtl3 in Genome Data Viewer
    Location:
    1p12
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (20807679..20908609)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (18988763..19089247)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (19998776..20097298)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene Rho GTPase activating protein 18 Neighboring gene LSM5 homolog, U6 small nuclear RNA associated Neighboring gene cytochrome b-c1 complex subunit 10-like Neighboring gene ribosomal protein S10 like 2 Neighboring gene tumor protein, translationally-controlled 1 like 3 Neighboring gene sterile alpha motif domain containing 3 Neighboring gene transmembrane protein 200A Neighboring gene RNA, U11 small nuclear 3

    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. Impaired maturation of myeloid progenitors in mice lacking novel Polycomb group protein MBT-1. Arai S, et al. EMBO J, 2005 May 18. PMID 15889154, Free PMC Article
    2. Next-generation sequencing to generate interactome datasets. Yu H, et al. Nat Methods, 2011 Jun. PMID 21516116, Free PMC Article
    3. Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations. Fragoza R, et al. Nat Commun, 2019 Sep 12. PMID 31515488, Free PMC Article
    4. A proteome-scale map of the human interactome network. Rolland T, et al. Cell, 2014 Nov 20. PMID 25416956, Free PMC Article
    5. 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylation-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within erythrocyte maturation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within granulocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within macrophage differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within myeloid cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription initiation-coupled chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus 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
    lethal(3)malignant brain tumor-like protein 3
    Names
    L3MBTL3, histone methyl-lysine binding protein
    l(3)mbt-like 3

    NCBI Reference Sequences (RefSeq)

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    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_001432316.1 → NP_001419245.1  lethal(3)malignant brain tumor-like protein 3 isoform a

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7

    2. NM_001432318.1 → NP_001419247.1  lethal(3)malignant brain tumor-like protein 3 isoform a

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7

    3. NM_001432319.1 → NP_001419248.1  lethal(3)malignant brain tumor-like protein 3 isoform b

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A8I6ADW7, A0A8I6AH98

    4. NM_001432320.1 → NP_001419249.1  lethal(3)malignant brain tumor-like protein 3 isoform b

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A8I6ADW7, A0A8I6AH98

    5. NM_001432321.1 → NP_001419250.1  lethal(3)malignant brain tumor-like protein 3 isoform b

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A8I6ADW7, A0A8I6AH98

    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_086019.1 Reference GRCr8

      Range
      20807679..20908609
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276392.1 → XP_063132462.1  lethal(3)malignant brain tumor-like protein 3 isoform X2

    2. XM_006227696.5 → XP_006227758.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    3. XM_063276409.1 → XP_063132479.1  lethal(3)malignant brain tumor-like protein 3 isoform X2

    4. XM_006227695.5 → XP_006227757.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    5. XM_039098998.2 → XP_038954926.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7
      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    6. XM_039098996.2 → XP_038954924.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7
      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    7. XM_039098995.2 → XP_038954923.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7
      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    8. XM_063276402.1 → XP_063132472.1  lethal(3)malignant brain tumor-like protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6ADW7, A0A8I6AH98

    9. XM_039099000.2 → XP_038954928.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7
      Related
      ENSRNOP00000058121.4, ENSRNOT00000061404.6
      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    10. XM_039098994.2 → XP_038954922.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7
      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    11. XM_003748666.6 → XP_003748714.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      See identical proteins and their annotated locations for XP_003748714.1

      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7
      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    12. XM_039099003.2 → XP_038954931.1  lethal(3)malignant brain tumor-like protein 3 isoform X2

      Related
      ENSRNOP00000083485.2, ENSRNOT00000118212.2
      Conserved Domains (2) summary
      cd09582
      Location:768 → 833
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:425 → 517
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    13. XM_006227697.5 → XP_006227759.1  lethal(3)malignant brain tumor-like protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006227759.1

      UniProtKB/TrEMBL
      A0A8I5ZZG3, A0A8I6ADW7
      Conserved Domains (2) summary
      cd09582
      Location:793 → 858
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:450 → 542
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    14. XM_006227699.5 → XP_006227761.1  lethal(3)malignant brain tumor-like protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I6ADW7, D3ZJT9
      Conserved Domains (3) summary
      cd09582
      Location:742 → 807
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00454
      Location:742 → 808
      SAM; Sterile alpha motif
      smart00561
      Location:399 → 491
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    15. XM_039099013.2 → XP_038954941.1  lethal(3)malignant brain tumor-like protein 3 isoform X4

      UniProtKB/TrEMBL
      A0A8I6ADW7
      Conserved Domains (2) summary
      cd09582
      Location:717 → 782
      SAM_Scm-like-3MBT3,4; SAM domain of Scm-like-3MBT3,4 proteins of Polycomb group
      smart00561
      Location:374 → 466
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107612.1: Suppressed sequence

      Description
      NM_001107612.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from mouse, laboratory: L3mbtl3 (GeneID:237339).
    Nucleotide Protein Strain
    Heading Accession and Version

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