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

Gene ID: 361084, updated on 13-Apr-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
Ensembl: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 and protein C-terminus 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, Apr 2022]
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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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
  • 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
  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 (11) 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 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
    ENSRNOP00000074706.2, ENSRNOT00000084471.2

  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, ENSRNOT00000120161.1

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_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

  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
    Related
    ENSRNOP00000081200.1
    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

  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
    ENSRNOP00000096784.1
    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

  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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