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    lmcd1 LIM and cysteine-rich domains 1 [ Danio rerio (zebrafish) ]

    Gene ID: 394045, updated on 9-Dec-2024

    Summary

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    Official Symbol
    lmcd1provided by ZNC
    Official Full Name
    LIM and cysteine-rich domains 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1067
    See related
    Ensembl:ENSDARG00000002002 AllianceGenome:ZFIN:ZDB-GENE-040426-1067
    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
    zgc:56533
    Summary
    Predicted to enable zinc ion binding activity. Is expressed in cardiac ventricle and myocardium. Orthologous to human LMCD1 (LIM and cysteine rich domains 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See lmcd1 in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (39096914..39108026)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (39110264..39121904)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene inositol hexakisphosphate kinase 1 Neighboring gene GDP-mannose pyrophosphorylase B Neighboring gene zgc:113516

    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
    • 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. Genetic association analyses highlight biological pathways underlying mitral valve prolapse. Dina C, et al. Nat Genet, 2015 Oct. PMID 26301497, Free PMC Article
    2. Expression of Protein-Coding Gene Orthologs in Zebrafish and Mouse Inner Ear Non-sensory Supporting Cells. Giffen KP, et al. Front Neurosci, 2019. PMID 31680844, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC56533

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    LIM and cysteine-rich domains protein 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_201070.3 → NP_957364.2  LIM and cysteine-rich domains protein 1

      See identical proteins and their annotated locations for NP_957364.2

      Status: VALIDATED

      Source sequence(s)
      FP102519
      UniProtKB/TrEMBL
      A0A8M1PFJ4, E7FCK0
      Related
      ENSDARP00000128272.1, ENSDART00000157127.3
      Conserved Domains (3) summary
      cd09340
      Location:230 → 287
      LIM1_Testin_like; The first LIM domain of Testin-like family
      cd09829
      Location:102 → 189
      PET_testin; The PET domain of Testin
      cl02475
      Location:293 → 326
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

    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_007133.7 Reference GRCz11 Primary Assembly

      Range
      39096914..39108026
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009296529.4 → XP_009294804.1  LIM and cysteine-rich domains protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8M3AMI6
      Conserved Domains (3) summary
      cd09340
      Location:169 → 226
      LIM1_Testin_like; The first LIM domain of Testin-like family
      cl02475
      Location:232 → 265
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
      cl05674
      Location:55 → 128
      PET; PET ((Prickle Espinas Testin) domain is involved in protein-protein interactions
    Nucleotide Protein Strain
    Heading Accession and Version

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