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    Lmo2 LIM domain only 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362176, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Lmo2provided by RGD
    Official Full Name
    LIM domain only 2provided by RGD
    Primary source
    RGD:1307101
    See related
    EnsemblRapid:ENSRNOG00000009401 AllianceGenome:RGD:1307101
    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 DNA-binding transcription factor binding activity; identical protein binding activity; and transcription coactivator activity. Predicted to contribute to DNA binding activity. Predicted to be involved in negative regulation of erythrocyte differentiation and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within embryonic hemopoiesis. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human LMO2 (LIM domain only 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 277.0), Lung (RPKM 169.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lmo2 in Genome Data Viewer
    Location:
    3q32
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (110810162..110832895)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (90355234..90377970)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (93909156..93931888)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene cytochrome c oxidase subunit 4i1, pseudogene 1 Neighboring gene uncharacterized LOC120101615 Neighboring gene uncharacterized LOC102551977 Neighboring gene uncharacterized LOC102552075 Neighboring gene uncharacterized LOC108350426 Neighboring gene small Cajal body-specific RNA 21 Neighboring gene F-box protein 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. Lmo2 and GATA-3 associated expression in intraembryonic hemogenic sites. Manaia A, et al. Development, 2000 Feb. PMID 10631184
    2. The LIM-domain binding protein Ldb1 and its partner LMO2 act as negative regulators of erythroid differentiation. Visvader JE, et al. Proc Natl Acad Sci U S A, 1997 Dec 9. PMID 9391090, Free PMC Article
    3. Human Bex2 interacts with LMO2 and regulates the transcriptional activity of a novel DNA-binding complex. Han C, et al. Nucleic Acids Res, 2005. PMID 16314316, Free PMC Article
    4. SCL and associated proteins distinguish active from repressive GATA transcription factor complexes. Tripic T, et al. Blood, 2009 Mar 5. PMID 19011221, Free PMC Article
    5. GAR22: a novel target gene of thyroid hormone receptor causes growth inhibition in human erythroid cells. Gamper I, et al. Exp Hematol, 2009 May. PMID 19375645

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC124678

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    contributes_to DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables bHLH transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    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
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coregulator binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within embryonic hemopoiesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of erythrocyte differentiation 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
    		  
    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
    		  
    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
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    rhombotin-2

    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_001037358.2 → NP_001032435.2  rhombotin-2 isoform 1

      See identical proteins and their annotated locations for NP_001032435.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      BC105772
      UniProtKB/TrEMBL
      A0A0G2K3R4, A0A0G2QC60
      Related
      ENSRNOP00000012625.7, ENSRNOT00000012625.8
      Conserved Domains (2) summary
      cd09384
      Location:92 → 147
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:156 → 211
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    2. NM_001244779.1 → NP_001231708.1  rhombotin-2 isoform 2

      See identical proteins and their annotated locations for NP_001231708.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate 5' exon, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
      Source sequence(s)
      BC105772, DY319476
      UniProtKB/TrEMBL
      A0A0G2KAY6, F1LNA1, Q3KRD2
      Conserved Domains (2) summary
      cd09384
      Location:30 → 85
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94 → 149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    3. NM_001244780.1 → NP_001231709.1  rhombotin-2 isoform 2

      See identical proteins and their annotated locations for NP_001231709.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has an alternate 5' exon, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
      Source sequence(s)
      BC105772, CO559731
      UniProtKB/TrEMBL
      A0A0G2KAY6, F1LNA1, Q3KRD2
      Conserved Domains (2) summary
      cd09384
      Location:30 → 85
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94 → 149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    4. NM_001244781.1 → NP_001231710.1  rhombotin-2 isoform 2

      See identical proteins and their annotated locations for NP_001231710.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks a segment in the 5' region, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
      Source sequence(s)
      BC105772, CK476274
      UniProtKB/TrEMBL
      A0A0G2KAY6, F1LNA1, Q3KRD2
      Conserved Domains (2) summary
      cd09384
      Location:30 → 85
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94 → 149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    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_086021.1 Reference GRCr8

      Range
      110810162..110832895
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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