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    Lmo7 LIM domain 7 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361084, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Lmo7provided by RGD
    Official Full Name
    LIM domain 7provided by RGD
    Primary source
    RGD:1302984
    See related
    EnsemblRapid:ENSRNOG00000060775 AllianceGenome:RGD:1302984
    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
    Enables actinin binding activity. Involved in positive regulation of transcription by RNA polymerase II. Located in adherens junction and apical plasma membrane. Orthologous to human LMO7 (LIM domain 7). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Lung (RPKM 719.6), Heart (RPKM 495.7) and 5 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lmo7 in Genome Data Viewer
    Location:
    15q21
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (84981689..85184554)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (78566999..78769833)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (86242911..86458512)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene COMM domain containing 6 Neighboring gene ubiquitin C-terminal hydrolase L3 Neighboring gene HCLS1 associated protein X-1, pseudogene 3 Neighboring gene uncharacterized LOC134482002 Neighboring gene glutamic-oxaloacetic transaminase 2, pseudogene 4 Neighboring gene eukaryotic translation initiation factor 3, subunit K, pseudogene 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 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. Transforming growth factor-beta1 induces LMO7 while enhancing the invasiveness of rat ascites hepatoma cells. Nakamura H, et al. Cancer Lett, 2005 Mar 18. PMID 15737692
    2. High CO2 Leads to Na,K-ATPase Endocytosis via c-Jun Amino-Terminal Kinase-Induced LMO7b Phosphorylation. Dada LA, et al. Mol Cell Biol, 2015 Dec. PMID 26370512, Free PMC Article
    3. Increased susceptibility to spontaneous lung cancer in mice lacking LIM-domain only 7. Tanaka-Okamoto M, et al. Cancer Sci, 2009 Apr. PMID 19215226, Free PMC Article
    4. Lmo7 is an emerin-binding protein that regulates the transcription of emerin and many other muscle-relevant genes. Holaska JM, et al. Hum Mol Genet, 2006 Dec 1. PMID 17067998
    5. Involvement of LMO7 in the association of two cell-cell adhesion molecules, nectin and E-cadherin, through afadin and alpha-actinin in epithelial cells. Ooshio T, et al. J Biol Chem, 2004 Jul 23. PMID 15140894

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. JNK-dependent LMO7b phosphorylation is required for hypercapnia-mediated Na,K-ATPase endocytosis.
      Title: High CO2 Leads to Na,K-ATPase Endocytosis via c-Jun Amino-Terminal Kinase-Induced LMO7b Phosphorylation.
    2. LMO7 is an afadin- and alpha-actinin-binding protein that connects the nectin-afadin and E-cadherin-catenin systems through alpha-actinin.
      Title: Involvement of LMO7 in the association of two cell-cell adhesion molecules, nectin and E-cadherin, through afadin and alpha-actinin in epithelial cells.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actinin binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of signaling IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in adherens junction IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in apical plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell surface ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    located_in nuclear envelope ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear envelope ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    LIM domain only protein 7
    Names
    LIM domain only 7
    TGF-beta induced protein
    NP_001001515.2
    NP_001402048.1
    XP_006252459.1
    XP_006252462.1
    XP_017455239.1
    XP_017455240.1
    XP_017455241.1
    XP_017455242.1
    XP_017455243.1
    XP_038949448.1
    XP_038949449.1
    XP_038949450.1
    XP_038949451.1
    XP_038949452.1
    XP_038949453.1
    XP_038949455.1
    XP_038949456.1
    XP_038949458.1
    XP_063130513.1
    XP_063130514.1
    XP_063130515.1
    XP_063130516.1
    XP_063130517.1
    XP_063130518.1
    XP_063130519.1
    XP_063130520.1
    XP_063130521.1
    XP_063130523.1
    XP_063130524.1
    XP_063130525.1
    XP_063130526.1
    XP_063130527.1
    XP_063130528.1
    XP_063130529.1
    XP_063130530.1
    XP_063130531.1
    XP_063130532.1
    XP_063130533.1
    XP_063130534.1
    XP_063130535.1
    XP_063130536.1
    XP_063130537.1

    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_001001515.2 → NP_001001515.2  LIM domain only protein 7 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      Related
      ENSRNOP00000107673.1, ENSRNOT00000172039.1

    2. NM_001415119.1 → NP_001402048.1  LIM domain only protein 7 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A0A8I5ZWT3
      Related
      ENSRNOP00000083331.1, ENSRNOT00000120161.2

    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_086033.1 Reference GRCr8

      Range
      84981689..85184554
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063274456.1 → XP_063130526.1  LIM domain only protein 7 isoform X25

    2. XM_063274460.1 → XP_063130530.1  LIM domain only protein 7 isoform X28

    3. XM_063274459.1 → XP_063130529.1  LIM domain only protein 7 isoform X26

    4. XM_039093521.2 → XP_038949449.1  LIM domain only protein 7 isoform X3

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (3) summary
      cd00136
      Location:1167 → 1236
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      pfam15949
      Location:655 → 822
      DUF4757; Domain of unknown function (DUF4757)
      cd21277
      Location:14 → 129
      CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7

    5. XM_039093520.2 → XP_038949448.1  LIM domain only protein 7 isoform X2

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (5) summary
      cd00136
      Location:1167 → 1236
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1769 → 1827
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam17380
      Location:1376 → 1640
      DUF5401; Family of unknown function (DUF5401)
      pfam15949
      Location:655 → 822
      DUF4757; Domain of unknown function (DUF4757)
      cd21277
      Location:14 → 129
      CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7

    6. XM_039093522.2 → XP_038949450.1  LIM domain only protein 7 isoform X4

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (5) summary
      cd00136
      Location:1167 → 1236
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1755 → 1813
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam17380
      Location:1362 → 1626
      DUF5401; Family of unknown function (DUF5401)
      pfam15949
      Location:655 → 822
      DUF4757; Domain of unknown function (DUF4757)
      cd21277
      Location:14 → 129
      CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7

    7. XM_039093523.2 → XP_038949451.1  LIM domain only protein 7 isoform X6

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (4) summary
      cd00136
      Location:1167 → 1236
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1747 → 1805
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:655 → 822
      DUF4757; Domain of unknown function (DUF4757)
      cd21277
      Location:14 → 129
      CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7

    8. XM_039093524.2 → XP_038949452.1  LIM domain only protein 7 isoform X9

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (3) summary
      cd00136
      Location:1167 → 1236
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      pfam15949
      Location:655 → 822
      DUF4757; Domain of unknown function (DUF4757)
      cd21277
      Location:14 → 129
      CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7

    9. XM_063274444.1 → XP_063130514.1  LIM domain only protein 7 isoform X8

    10. XM_039093525.2 → XP_038949453.1  LIM domain only protein 7 isoform X10

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (5) summary
      cd00136
      Location:1167 → 1236
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1728 → 1786
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam17380
      Location:1335 → 1599
      DUF5401; Family of unknown function (DUF5401)
      pfam15949
      Location:655 → 822
      DUF4757; Domain of unknown function (DUF4757)
      cd21277
      Location:14 → 129
      CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7

    11. XM_017599750.3 → XP_017455239.1  LIM domain only protein 7 isoform X5

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (4) summary
      cd00014
      Location:17 → 129
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      cd00136
      Location:1147 → 1216
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1754 → 1812
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:655 → 801
      DUF4757; Domain of unknown function (DUF4757)

    12. XM_063274445.1 → XP_063130515.1  LIM domain only protein 7 isoform X11

    13. XM_063274446.1 → XP_063130516.1  LIM domain only protein 7 isoform X12

    14. XM_063274447.1 → XP_063130517.1  LIM domain only protein 7 isoform X13

    15. XM_039093527.2 → XP_038949455.1  LIM domain only protein 7 isoform X15

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (4) summary
      cd00136
      Location:1100 → 1169
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1707 → 1765
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:588 → 755
      DUF4757; Domain of unknown function (DUF4757)
      cd21277
      Location:14 → 129
      CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7

    16. XM_006252397.5 → XP_006252459.1  LIM domain only protein 7 isoform X16

      UniProtKB/TrEMBL
      Q6JBI7
      Conserved Domains (5) summary
      cd00014
      Location:17 → 129
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      cd00136
      Location:1080 → 1149
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1687 → 1745
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:588 → 734
      DUF4757; Domain of unknown function (DUF4757)
      pfam15996
      Location:1301 → 1414
      PNISR; Arginine/serine-rich protein PNISR

    17. XM_063274448.1 → XP_063130518.1  LIM domain only protein 7 isoform X18

      Related
      ENSRNOP00000090858.2, ENSRNOT00000118677.2

    18. XM_017599754.3 → XP_017455243.1  LIM domain only protein 7 isoform X20

      UniProtKB/TrEMBL
      Q6JBI6

    19. XM_006252400.5 → XP_006252462.1  LIM domain only protein 7 isoform X23

      UniProtKB/TrEMBL
      Q6JBI6
      Conserved Domains (4) summary
      cd00014
      Location:17 → 129
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      cd00136
      Location:736 → 805
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1343 → 1401
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:242 → 390
      DUF4757; Domain of unknown function (DUF4757)

    20. XM_063274457.1 → XP_063130527.1  LIM domain only protein 7 isoform X26

    21. XM_063274464.1 → XP_063130534.1  LIM domain only protein 7 isoform X32

    22. XM_063274453.1 → XP_063130523.1  LIM domain only protein 7 isoform X21

    23. XM_063274454.1 → XP_063130524.1  LIM domain only protein 7 isoform X22

    24. XM_063274443.1 → XP_063130513.1  LIM domain only protein 7 isoform X1

    25. XM_063274463.1 → XP_063130533.1  LIM domain only protein 7 isoform X31

    26. XM_063274466.1 → XP_063130536.1  LIM domain only protein 7 isoform X34

    27. XM_017599752.3 → XP_017455241.1  LIM domain only protein 7 isoform X14

      UniProtKB/TrEMBL
      A0A8I6AMI4
      Related
      ENSRNOP00000096784.1, ENSRNOT00000095601.2

    28. XM_063274465.1 → XP_063130535.1  LIM domain only protein 7 isoform X33

    29. XM_063274450.1 → XP_063130520.1  LIM domain only protein 7 isoform X19

    30. XM_017599751.3 → XP_017455240.1  LIM domain only protein 7 isoform X7

      UniProtKB/TrEMBL
      A0A8I6AMI4

    31. XM_039093528.2 → XP_038949456.1  LIM domain only protein 7 isoform X17

      UniProtKB/TrEMBL
      A0A8I6AMI4
      Related
      ENSRNOP00000106691.1, ENSRNOT00000155353.1
      Conserved Domains (4) summary
      cd00136
      Location:1051 → 1120
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      cd08368
      Location:1658 → 1716
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:559 → 706
      DUF4757; Domain of unknown function (DUF4757)
      cl00030
      Location:42 → 100
      CH_SF; calponin homology (CH) domain superfamily

    32. XM_039093530.2 → XP_038949458.1  LIM domain only protein 7 isoform X36

      UniProtKB/TrEMBL
      A0A8I6AMI4
      Conserved Domains (3) summary
      cd00136
      Location:1051 → 1120
      PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
      pfam15949
      Location:559 → 706
      DUF4757; Domain of unknown function (DUF4757)
      cl00030
      Location:42 → 100
      CH_SF; calponin homology (CH) domain superfamily

    33. XM_063274455.1 → XP_063130525.1  LIM domain only protein 7 isoform X24

    34. XM_063274461.1 → XP_063130531.1  LIM domain only protein 7 isoform X29

    35. XM_063274458.1 → XP_063130528.1  LIM domain only protein 7 isoform X27

    36. XM_063274462.1 → XP_063130532.1  LIM domain only protein 7 isoform X30

      UniProtKB/TrEMBL
      A0A8I5ZR48
      Related
      ENSRNOP00000081200.1, ENSRNOT00000117839.2

    37. XM_063274449.1 → XP_063130519.1  LIM domain only protein 7 isoform X19

    38. XM_063274467.1 → XP_063130537.1  LIM domain only protein 7 isoform X35

    39. XM_063274451.1 → XP_063130521.1  LIM domain only protein 7 isoform X19

    40. XM_017599753.3 → XP_017455242.1  LIM domain only protein 7 isoform X19

      UniProtKB/TrEMBL
      A0A8I6AMI4

    RNA

    1. XR_010057841.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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