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    zgc:56628 zgc:56628 [ Danio rerio (zebrafish) ]

    Gene ID: 393242, updated on 2-Nov-2024

    Summary

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    Official Symbol
    zgc:56628provided by ZNC
    Official Full Name
    zgc:56628provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1099
    See related
    Ensembl:ENSDARG00000110020 AllianceGenome:ZFIN:ZDB-GENE-040426-1099
    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
    Summary
    Predicted to enable metal ion binding activity. Is expressed in nervous system and otic vesicle. [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See zgc:56628 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (22409604..22412938)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (22753644..22757299)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene selenoprotein F Neighboring gene heparan sulfate 2-O-sulfotransferase 1a Neighboring gene protein kinase N2a Neighboring gene general transcription factor IIB

    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. 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
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    3. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC56628

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding 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

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    Preferred Names
    LIM domain transcription factor LMO4

    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_200272.1 → NP_956566.1  LIM domain transcription factor LMO4

      See identical proteins and their annotated locations for NP_956566.1

      Status: PROVISIONAL

      Source sequence(s)
      BC049054
      UniProtKB/TrEMBL
      A0A8M1PB13, Q7ZUG7
      Related
      ENSDARP00000148290.1, ENSDART00000182915.1
      Conserved Domains (2) summary
      cd09387
      Location:98 → 152
      LIM2_LMO4; The second LIM domain of LMO4 (LIM domain only protein 4)
      cl02475
      Location:34 → 88
      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_007113.7 Reference GRCz11 Primary Assembly

      Range
      22409604..22412938
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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