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    lmo7b LIM domain 7b [ Danio rerio (zebrafish) ]

    Gene ID: 558333, updated on 9-Dec-2024

    Summary

    Official Symbol
    lmo7bprovided by ZNC
    Official Full Name
    LIM domain 7bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060825-242
    See related
    Ensembl:ENSDARG00000053535 AllianceGenome:ZFIN:ZDB-GENE-060825-242
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    lmo7; zgc:152922; DKEY-180K21.1
    Summary
    Predicted to enable cysteine-type deubiquitinase activity and metal ion binding activity. Acts upstream of or within heart looping. Is expressed in myotome. Orthologous to human LMO7 (LIM domain 7). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    NEW
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    Genomic context

    See lmo7b in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (34365844..34450626, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (33633796..33718167, complement)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 5 member 7a Neighboring gene potassium channel tetramerisation domain containing 12.2 Neighboring gene Kruppel like factor 12a Neighboring gene Kruppel like factor 5a

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    General gene information

    Markers

    Clone Names

    • MGC152922

    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 heart development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within heart looping IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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
     
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
     

    General protein information

    Preferred Names
    LIM domain only protein 7b
    Names
    LIM domain only 7
    LIM domain only 7b
    NP_001038909.2
    XP_068075714.1
    XP_068075715.1
    XP_068075717.1
    XP_068075720.1
    XP_068075721.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001045444.2NP_001038909.2  LIM domain only protein 7b

      Status: VALIDATED

      Source sequence(s)
      BX901972, CR848003, CT573462
      UniProtKB/TrEMBL
      A0A8M1NAP0, F6NN15
      Related
      ENSDARP00000115656.3, ENSDART00000140515.5
      Conserved Domains (6) summary
      cd00014
      Location:16129
      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 ...
      cd00987
      Location:851912
      PDZ_serine_protease; PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind ...
      cd08368
      Location:13141373
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      pfam12278
      Location:10191102
      SDP_N; Sex determination protein N terminal
      pfam15949
      Location:418579
      DUF4757; Domain of unknown function (DUF4757)
      cl20817
      Location:10191057
      GBP_C; Guanylate-binding protein, C-terminal domain

    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_007112.7 Reference GRCz11 Primary Assembly

      Range
      34365844..34450626 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068219619.1XP_068075720.1  LIM domain only protein 7b isoform X4

    2. XM_068219620.1XP_068075721.1  LIM domain only protein 7b isoform X5

    3. XM_068219616.1XP_068075717.1  LIM domain only protein 7b isoform X3

    4. XM_068219614.1XP_068075715.1  LIM domain only protein 7b isoform X2

    5. XM_068219613.1XP_068075714.1  LIM domain only protein 7b isoform X1

      Related
      ENSDARP00000119254.2, ENSDART00000143048.4

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394496.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      3469..63711 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395220.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      393367..411344 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)