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    hmgb3a high mobility group box 3a [ Danio rerio (zebrafish) ]

    Gene ID: 561025, updated on 14-Nov-2024

    Summary

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    Official Symbol
    hmgb3aprovided by ZNC
    Official Full Name
    high mobility group box 3aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050428-1
    See related
    Ensembl:ENSDARG00000056725 AllianceGenome:ZFIN:ZDB-GENE-050428-1
    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
    wu:fb17a03; wu:fk52f12; zgc:162415
    Summary
    Predicted to enable DNA binding activity, bending. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Is expressed in several structures, including axis; intermediate cell mass of mesoderm; mesoderm; nervous system; and pectoral fin bud. Human ortholog(s) of this gene implicated in syndromic microphthalmia 13. Orthologous to human HMGB3 (high mobility group box 3). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See hmgb3a in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (25913225..25918281)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (25642032..25647088)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene myotubularin related protein 1a Neighboring gene CD99 molecule-like 2 Neighboring gene uncharacterized LOC108190781 Neighboring gene arrestin, beta 2b Neighboring gene uncharacterized LOC137496167 Neighboring gene proline, glutamate and leucine rich protein 1

    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. Age-Associated Different Transcriptome Profiling in Zebrafish and Rats: an Insight into the Diversity of Vertebrate Aging. Kijima Y, et al. Mar Biotechnol (NY), 2022 Oct. PMID 36063238
    2. The HMGB protein gene family in zebrafish: Evolution and embryonic expression patterns. Moleri S, et al. Gene Expr Patterns, 2011 Jan-Feb. PMID 20804857
    3. Bone morphogenetic protein signaling governs biliary-driven liver regeneration in zebrafish through tbx2b and id2a. Choi TY, et al. Hepatology, 2017 Nov. PMID 28599080, Free PMC Article
    4. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
    5. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article

    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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    high mobility group protein B3a

    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_001122836.1 → NP_001116308.1  high mobility group protein B3a

      Status: PROVISIONAL

      Source sequence(s)
      BX005022
      UniProtKB/TrEMBL
      A0A8N7UYU2, F1QGP8
      Related
      ENSDARP00000111817.2, ENSDART00000129924.4
      Conserved Domains (2) summary
      pfam00505
      Location:92 → 159
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:7 → 78
      HMG_box_2; HMG-box 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_007118.7 Reference GRCz11 Primary Assembly

      Range
      25913225..25918281
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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