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    hmg20b high mobility group 20B [ Danio rerio (zebrafish) ]

    Gene ID: 553572, updated on 9-Dec-2024

    Summary

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    Official Symbol
    hmg20bprovided by ZNC
    Official Full Name
    high mobility group 20Bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-4258
    See related
    Ensembl:ENSDARG00000042045 AllianceGenome:ZFIN:ZDB-GENE-030131-4258
    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
    fc85b02; wu:fc85b02; zgc:110001; si:dkey-110c1.6
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in regulation of gene expression. Predicted to be active in nucleus. Orthologous to human HMG20B (high mobility group 20B). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See hmg20b in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (20169352..20178413)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (20144374..20153435)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene eukaryotic translation elongation factor 2a, tandem duplicate 2 Neighboring gene BTB (POZ) domain containing 2a Neighboring gene unc-13 homolog A (C. elegans) Neighboring gene si:dkey-110c1.10

    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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    Markers

    Homology

    Clone Names

    • MGC110001

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related
    Names
    high mobility group box domain containing

    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_001020551.2 → NP_001018387.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform 1

      See identical proteins and their annotated locations for NP_001018387.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BX005203, EH563391, EH593686
      UniProtKB/TrEMBL
      A0A2R8QFN1, A0A2R8RK30, Q503Z1
      Related
      ENSDARP00000061616.4, ENSDART00000061617.6
      Conserved Domains (1) summary
      cd01390
      Location:53 → 118
      HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

    2. NM_001045228.2 → NP_001038693.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 3' terminal exon that extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      BX005203, EH531855, EH593412, EH604105
      UniProtKB/TrEMBL
      A0A0R4IWQ8, A0A8M1NA95
      Related
      ENSDARP00000139903.1, ENSDART00000169055.2
      Conserved Domains (1) summary
      cd01390
      Location:53 → 118
      HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

    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
      20169352..20178413
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395103.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      241796..250870
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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