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    lmo7a LIM domain 7a [ Danio rerio (zebrafish) ]

    Gene ID: 553341, updated on 28-Oct-2024

    Summary

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    Official Symbol
    lmo7aprovided by ZNC
    Official Full Name
    LIM domain 7aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030219-74
    See related
    Ensembl:ENSDARG00000004930 AllianceGenome:ZFIN:ZDB-GENE-030219-74
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fc03h03; id:ibd5155; wu:fc03h03; si:dkey-57a22.10
    Summary
    Predicted to enable cysteine-type deubiquitinase activity and metal ion binding activity. Predicted to act upstream of or within regulation of cell adhesion and regulation of signaling. Is expressed in several structures, including brain; digestive system; eye; immature eye; and pericardial region. Orthologous to human LMO7 (LIM domain 7). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See lmo7a in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    35
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (21893757..21970132, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (22082888..22159886, complement)

    Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene aconitate decarboxylase 1 Neighboring gene potassium channel tetramerisation domain containing 12.1 Neighboring gene ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase) Neighboring gene shugoshin 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. New Findings on LMO7 Transcripts, Proteins and Regulatory Regions in Human and Vertebrate Model Organisms and the Intracellular Distribution in Skeletal Muscle Cells. Gomes G, et al. Int J Mol Sci, 2021 Nov 28. PMID 34884689, Free PMC Article
    2. The lim domain only protein 7 is important in zebrafish heart development. Ott EB, et al. Dev Dyn, 2008 Dec. PMID 19035355
    3. Mycn regulates intestinal development through ribosomal biogenesis in a zebrafish model of Feingold syndrome 1. Li YF, et al. PLoS Biol, 2022 Nov. PMID 36318514, Free PMC Article
    4. Gene expression profiling of granule cells and Purkinje cells in the zebrafish cerebellum. Takeuchi M, et al. J Comp Neurol, 2017 May 1. PMID 27615194
    5. A gene expression screen in zebrafish embryogenesis. Kudoh T, et al. Genome Res, 2001 Dec. PMID 11731487

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables cysteine-type deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of signaling IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    LIM domain only protein 7
    Names
    LIM domain only 7a
    lmo7
    NP_001121703.1
    XP_009302886.1
    XP_009302897.1
    XP_021334325.1
    XP_021334326.1
    XP_068079478.1
    XP_068079479.1
    XP_068079480.1
    XP_068079481.1
    XP_068079482.1
    XP_068079483.1
    XP_068079484.1

    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_001128231.1 → NP_001121703.1  LIM domain only protein 7

      Status: PROVISIONAL

      Source sequence(s)
      CR536604
      UniProtKB/TrEMBL
      A0A8M1NHP5, B0UYM8
      Related
      ENSDARP00000027005.9, ENSDART00000009920.11
      Conserved Domains (7) summary
      COG3144
      Location:954 → 1163
      FliK; Flagellar hook-length control protein FliK [Cell motility]
      cd00136
      Location:1184 → 1245
      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:1757 → 1815
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam00307
      Location:20 → 98
      CH; Calponin homology (CH) domain
      pfam15949
      Location:733 → 880
      DUF4757; Domain of unknown function (DUF4757)
      cl20817
      Location:1382 → 1424
      GBP_C; Guanylate-binding protein, C-terminal domain
      cl23720
      Location:1383 → 1468
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007120.7 Reference GRCz11 Primary Assembly

      Range
      21893757..21970132 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068223383.1 → XP_068079484.1  LIM domain only protein 7 isoform X11

    2. XM_068223382.1 → XP_068079483.1  LIM domain only protein 7 isoform X10

    3. XM_068223379.1 → XP_068079480.1  LIM domain only protein 7 isoform X4

    4. XM_009304622.4 → XP_009302897.1  LIM domain only protein 7 isoform X7

      UniProtKB/TrEMBL
      A0A8M3B2L7
      Conserved Domains (7) summary
      COG3144
      Location:954 → 1163
      FliK; Flagellar hook-length control protein FliK [Cell motility]
      cd00136
      Location:1184 → 1245
      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:1793 → 1851
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam00307
      Location:20 → 98
      CH; Calponin homology (CH) domain
      pfam15949
      Location:733 → 880
      DUF4757; Domain of unknown function (DUF4757)
      cl20817
      Location:1365 → 1407
      GBP_C; Guanylate-binding protein, C-terminal domain
      cl23720
      Location:1366 → 1451
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    5. XM_021478651.2 → XP_021334326.1  LIM domain only protein 7 isoform X6

      UniProtKB/TrEMBL
      A0A8M9QFC6
      Conserved Domains (6) summary
      cd00014
      Location:17 → 128
      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:1184 → 1245
      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:1807 → 1865
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:733 → 881
      DUF4757; Domain of unknown function (DUF4757)
      cl25574
      Location:809 → 1096
      TOP2c; TopoisomeraseII
      cl26511
      Location:1379 → 1489
      Neuromodulin_N; Gap junction protein N-terminal region

    6. XM_009304611.4 → XP_009302886.1  LIM domain only protein 7 isoform X5

      UniProtKB/TrEMBL
      A0A8M3AVY5
      Conserved Domains (7) summary
      COG3144
      Location:954 → 1163
      FliK; Flagellar hook-length control protein FliK [Cell motility]
      cd00136
      Location:1184 → 1245
      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:1810 → 1868
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam00307
      Location:20 → 98
      CH; Calponin homology (CH) domain
      pfam15949
      Location:733 → 880
      DUF4757; Domain of unknown function (DUF4757)
      cl20817
      Location:1382 → 1424
      GBP_C; Guanylate-binding protein, C-terminal domain
      cl23720
      Location:1383 → 1468
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    7. XM_021478650.2 → XP_021334325.1  LIM domain only protein 7 isoform X2

      UniProtKB/TrEMBL
      A0A8M9QJL3
      Conserved Domains (6) summary
      cd00014
      Location:17 → 128
      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:1184 → 1245
      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:1824 → 1882
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam15949
      Location:733 → 881
      DUF4757; Domain of unknown function (DUF4757)
      cl25574
      Location:809 → 1096
      TOP2c; TopoisomeraseII
      cl26511
      Location:1396 → 1506
      Neuromodulin_N; Gap junction protein N-terminal region

    8. XM_068223381.1 → XP_068079482.1  LIM domain only protein 7 isoform X9

    9. XM_068223378.1 → XP_068079479.1  LIM domain only protein 7 isoform X3

    10. XM_068223380.1 → XP_068079481.1  LIM domain only protein 7 isoform X8

    11. XM_068223377.1 → XP_068079478.1  LIM domain only protein 7 isoform X1

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395278.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      262756..339066 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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