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    Lims2 LIM zinc finger domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361303, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Lims2provided by RGD
    Official Full Name
    LIM zinc finger domain containing 2provided by RGD
    Primary source
    RGD:1305273
    See related
    Ensembl:ENSRNOG00000016021 AllianceGenome:RGD:1305273
    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 metal ion binding activity. Predicted to be involved in several processes, including cell-cell junction organization; positive regulation of integrin-mediated signaling pathway; and positive regulation of substrate adhesion-dependent cell spreading. Predicted to act upstream of or within negative regulation of apoptotic process; negative regulation of hepatocyte proliferation; and negative regulation of neural precursor cell proliferation. Predicted to be located in plasma membrane. Predicted to be active in cell-cell junction; cytoplasm; and focal adhesion. Human ortholog(s) of this gene implicated in autosomal recessive limb-girdle muscular dystrophy type 2W. Orthologous to human LIMS2 (LIM zinc finger domain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 548.5), Kidney (RPKM 133.8) and 6 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lims2 in Genome Data Viewer
    Location:
    18p12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (23828164..23866363)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (23553937..23592137)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (24707951..24746159)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA21 Neighboring gene WD repeat domain 33 Neighboring gene SFT2 domain containing 3 Neighboring gene uncharacterized LOC120098222 Neighboring gene G protein-coupled receptor 17 Neighboring gene myosin VIIb Neighboring gene uncharacterized LOC134482980 Neighboring gene interacts with SUPT6H, CTD assembly factor 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. Role of PINCH and its partner tumor suppressor Rsu-1 in regulating liver size and tumorigenesis. Donthamsetty S, et al. PLoS One, 2013. PMID 24058607, Free PMC Article
    2. Dissecting integrin-dependent regulation of neural stem cell proliferation in the adult brain. Porcheri C, et al. J Neurosci, 2014 Apr 9. PMID 24719101, Free PMC Article
    3. ILK, PINCH and parvin: the tIPP of integrin signalling. Legate KR, et al. Nat Rev Mol Cell Biol, 2006 Jan. PMID 16493410
    4. PINCH2 is a new five LIM domain protein, homologous to PINCHand localized to focal adhesions. Braun A, et al. Exp Cell Res, 2003 Apr 1. PMID 12651156
    5. Targeted ablation of PINCH1 and PINCH2 from murine myocardium results in dilated cardiomyopathy and early postnatal lethality. Liang X, et al. Circulation, 2009 Aug 18. PMID 19652092, 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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell-cell junction organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell-cell junction organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of cholangiocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of integrin-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of cholangiocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of hepatocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of neural precursor cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of neural precursor cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of integrin-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of integrin-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of substrate adhesion-dependent cell spreading IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cell-cell junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in focal adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in focal adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    LIM and senescent cell antigen-like-containing domain protein 2
    Names
    LIM and senescent cell antigen like domains 2
    LIM-type zinc finger domains 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_001012163.2 → NP_001012163.2  LIM and senescent cell antigen-like-containing domain protein 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/TrEMBL
      A0A0G2KAE1, A0A8I6GK29, A6J2P7
      Conserved Domains (5) summary
      cd09331
      Location:10 → 68
      LIM1_PINCH; The first LIM domain of protein PINCH
      cd09332
      Location:71 → 122
      LIM2_PINCH; The second LIM domain of protein PINCH
      cd09333
      Location:135 → 185
      LIM3_PINCH; The third LIM domain of protein PINCH
      cd09334
      Location:191 → 244
      LIM4_PINCH; The fourth LIM domain of protein PINCH
      cd09335
      Location:252 → 305
      LIM5_PINCH; The fifth LIM domain of protein PINCH

    2. NM_001415697.1 → NP_001402626.1  LIM and senescent cell antigen-like-containing domain protein 2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/TrEMBL
      A6J2P6

    3. NM_001415698.1 → NP_001402627.1  LIM and senescent cell antigen-like-containing domain protein 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/TrEMBL
      A0A8I6GK29, A6J2P7
      Related
      ENSRNOP00000092203.1, ENSRNOT00000112249.1

    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_086036.1 Reference GRCr8

      Range
      23828164..23866363
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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