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    Lmo1 LIM domain only 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 245979, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Lmo1provided by RGD
    Official Full Name
    LIM domain only 1provided by RGD
    Primary source
    RGD:621166
    See related
    EnsemblRapid:ENSRNOG00000014629 AllianceGenome:RGD:621166
    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
    Also known as
    Dat1
    Summary
    Predicted to enable metal ion binding activity. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II; positive regulation of transcription by RNA polymerase II; and regulation of T cell homeostatic proliferation. Predicted to be located in nucleus. Orthologous to human LMO1 (LIM domain only 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Testes (RPKM 41.0), Brain (RPKM 35.7) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lmo1 in Genome Data Viewer
    Location:
    1q33
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (172567156..172603282, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (163132338..163168521, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (173728183..173764288, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene TUB bipartite transcription factor Neighboring gene high mobility group protein B1 pseudogene Neighboring gene RIC3 acetylcholine receptor chaperone Neighboring gene uncharacterized LOC120097351 Neighboring gene serine/threonine kinase 33 Neighboring gene small nucleolar RNA U13

    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 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. The highly related LIM factors, LMO1, LMO3 and LMO4, play different roles in the regulation of the pituitary glycoprotein hormone alpha-subunit (alpha GSU) gene. Susa T, et al. Biosci Rep, 2009 Oct 9. PMID 19228115
    2. Thymic overexpression of Ttg-1 in transgenic mice results in T-cell acute lymphoblastic leukemia/lymphoma. McGuire EA, et al. Mol Cell Biol, 1992 Sep. PMID 1508213, Free PMC Article
    3. T-cell translocation gene 1 (Ttg-1) encodes a nuclear protein normally expressed in neural lineage cells. McGuire EA, et al. Blood, 1991 Feb 1. PMID 1703797
    4. Disordered T-cell development and T-cell malignancies in SCL LMO1 double-transgenic mice: parallels with E2A-deficient mice. Chervinsky DS, et al. Mol Cell Biol, 1999 Jul. PMID 10373552, Free PMC Article
    5. NKX3.1 is a direct TAL1 target gene that mediates proliferation of TAL1-expressing human T cell acute lymphoblastic leukemia. Kusy S, et al. J Exp Med, 2010 Sep 27. PMID 20855495, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of T cell homeostatic proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of T cell homeostatic proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    NOT located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    LIM domain only protein 3
    Names
    LIM domain only protein 1
    dopamine-inducible LIM-domain transcription factor DAT1
    neuronal-specific transcription factor DAT1

    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_001402442.1 → NP_001389371.1  LIM domain only protein 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A0G2K422, A6I7V8
      Related
      ENSRNOP00000072872.1, ENSRNOT00000086944.3

    2. NM_139112.3 → NP_620812.2  LIM domain only protein 3 isoform 2

      See identical proteins and their annotated locations for NP_620812.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A6I7V7, D4A8W2
      Related
      ENSRNOP00000019690.5, ENSRNOT00000019690.7
      Conserved Domains (2) summary
      cd09388
      Location:23 → 77
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:87 → 141
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    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
      172567156..172603282 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006229968.3 → XP_006230030.1  LIM domain only protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006230030.1

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A0G2K422, A6I7V8
      Conserved Domains (2) summary
      cd09388
      Location:24 → 78
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:88 → 142
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    2. XM_039098644.2 → XP_038954572.1  LIM domain only protein 3 isoform X3

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A6I7V9
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    3. XM_063280885.1 → XP_063136955.1  LIM domain only protein 3 isoform X3

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A6I7V9

    4. XM_039098608.2 → XP_038954536.1  LIM domain only protein 3 isoform X2

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I5ZW30
      Related
      ENSRNOP00000083193.1, ENSRNOT00000093951.2
      Conserved Domains (2) summary
      cd09388
      Location:19 → 73
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:83 → 137
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99MB5.2 GenPept UniProtKB/Swiss-Prot:Q99MB5

    Gene LinkOut

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

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