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    Hmgb3 high mobility group box 3 [ Mus musculus (house mouse) ]

    Gene ID: 15354, updated on 31-Jan-2019

    Summary

    Official Symbol
    Hmgb3provided by MGI
    Official Full Name
    high mobility group box 3provided by MGI
    Primary source
    MGI:MGI:1098219
    See related
    Ensembl:ENSMUSG00000015217
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Hmg4; Hmg2a
    Expression
    Biased expression in CNS E11.5 (RPKM 187.0), CNS E14 (RPKM 108.6) and 11 other tissues See more
    Orthologs

    Genomic context

    See Hmgb3 in Genome Data Viewer
    Location:
    X; X A7.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) X NC_000086.7 (71555917..71560673)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) X NC_000086.6 (68809168..68813829)

    Chromosome X - NC_000086.7Genomic Context describing neighboring genes Neighboring gene CD99 antigen-like 2 Neighboring gene ribosomal protein L36 pseudogene Neighboring gene G-protein-coupled receptor 50 Neighboring gene ribosomal protein L30, pseudogene 10

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA binding, bending IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Process Evidence Code Pubs
    DNA recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of B cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of myeloid cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    high mobility group protein B3
    Names
    high mobility group protein 2a
    high mobility group protein 4
    high mobilty group protein 2A

    NCBI Reference Sequences (RefSeq)

    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_001293623.1NP_001280552.1  high mobility group protein B3

      See identical proteins and their annotated locations for NP_001280552.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      AI385779, AK141399, CX240626
      Consensus CDS
      CCDS30180.1
      UniProtKB/Swiss-Prot
      O54879
      UniProtKB/TrEMBL
      Q544R9
      Related
      ENSMUSP00000086260.3, ENSMUST00000088874.9
      Conserved Domains (2) summary
      pfam00505
      Location:93160
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:1378
      HMG_box_2; HMG-box domain
    2. NM_001293624.1NP_001280553.1  high mobility group protein B3

      See identical proteins and their annotated locations for NP_001280553.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      AI385779, AK141399
      Consensus CDS
      CCDS30180.1
      UniProtKB/Swiss-Prot
      O54879
      UniProtKB/TrEMBL
      Q544R9
      Related
      ENSMUSP00000110232.2, ENSMUST00000072699.12
      Conserved Domains (2) summary
      pfam00505
      Location:93160
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:1378
      HMG_box_2; HMG-box domain
    3. NM_001293625.1NP_001280554.1  high mobility group protein B3

      See identical proteins and their annotated locations for NP_001280554.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      AI385779, AK141399, AK159119
      Consensus CDS
      CCDS30180.1
      UniProtKB/Swiss-Prot
      O54879
      UniProtKB/TrEMBL
      Q544R9
      Related
      ENSMUSP00000015361.4, ENSMUST00000015361.10
      Conserved Domains (2) summary
      pfam00505
      Location:93160
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:1378
      HMG_box_2; HMG-box domain
    4. NM_008253.4NP_032279.1  high mobility group protein B3

      See identical proteins and their annotated locations for NP_032279.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      AI385779, AK032163, AK141399
      Consensus CDS
      CCDS30180.1
      UniProtKB/Swiss-Prot
      O54879
      UniProtKB/TrEMBL
      Q544R9
      Related
      ENSMUSP00000110229.2, ENSMUST00000114582.8
      Conserved Domains (2) summary
      pfam00505
      Location:93160
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:1378
      HMG_box_2; HMG-box domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000086.7 Reference GRCm38.p4 C57BL/6J

      Range
      71555917..71560673
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006527842.3XP_006527905.1  high mobility group protein B3 isoform X1

      See identical proteins and their annotated locations for XP_006527905.1

      UniProtKB/Swiss-Prot
      O54879
      UniProtKB/TrEMBL
      Q544R9
      Conserved Domains (2) summary
      pfam00505
      Location:93160
      HMG_box; HMG (high mobility group) box
      pfam09011
      Location:1378
      HMG_box_2; HMG-box domain
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