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    Hoxb3 homeobox B3 [ Mus musculus (house mouse) ]

    Gene ID: 15410, updated on 9-Dec-2024

    Summary

    Official Symbol
    Hoxb3provided by MGI
    Official Full Name
    homeobox B3provided by MGI
    Primary source
    MGI:MGI:96184
    See related
    Ensembl:ENSMUSG00000048763 AllianceGenome:MGI:96184
    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
    Hox-2.7
    Summary
    Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including hemopoiesis; nervous system development; and skeletal system development. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; central nervous system; embryo mesenchyme; gut; and lung. Orthologous to human HOXB3 (homeobox B3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in adrenal adult (RPKM 10.4), genital fat pad adult (RPKM 3.2) and 17 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Hoxb3 in Genome Data Viewer
    Location:
    11 D; 11 59.84 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (96197927..96238756)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (96307101..96347930)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene homeobox B5 and homeobox B6, opposite strand Neighboring gene homeobox B6 Neighboring gene homeobox B5 Neighboring gene Hoxb locus associated lincRNA Neighboring gene microRNA 10a Neighboring gene homeobox B4 Neighboring gene predicted gene 11536 Neighboring gene homeobox B3 and homeobox B2, opposite strand Neighboring gene STARR-seq mESC enhancer starr_30549 Neighboring gene homeobox B2 Neighboring gene homeobox B1

    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 Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in angiogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in anterior/posterior pattern specification IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within anterior/posterior pattern specification IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within cartilage development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within definitive hemopoiesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in embryonic skeletal system morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within embryonic skeletal system morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within embryonic skeletal system morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within face development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within glossopharyngeal nerve morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of neurogenesis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within rhombomere development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within thyroid gland development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    homeobox protein Hox-B3
    Names
    homeo box B3
    homeobox protein Hox-2.7
    homeobox protein MH-23

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001079869.1NP_001073338.1  homeobox protein Hox-B3

      See identical proteins and their annotated locations for NP_001073338.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant is the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AL606824
      Consensus CDS
      CCDS25299.1
      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Related
      ENSMUSP00000091476.4, ENSMUST00000093944.10
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    2. NM_010458.2NP_034588.2  homeobox protein Hox-B3

      See identical proteins and their annotated locations for NP_034588.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AL606824
      Consensus CDS
      CCDS25299.1
      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Related
      ENSMUSP00000053426.3, ENSMUST00000055334.3
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      96197927..96238756
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006532290.4XP_006532353.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_006532353.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    2. XM_006532289.5XP_006532352.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_006532352.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    3. XM_006532288.3XP_006532351.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_006532351.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    4. XM_006532283.5XP_006532346.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_006532346.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    5. XM_006532291.3XP_006532354.1  homeobox protein Hox-B3 isoform X2

      Conserved Domains (2) summary
      pfam00046
      Location:194247
      Homeobox; Homeobox domain
      pfam13293
      Location:368430
      DUF4074; Domain of unknown function (DUF4074)
    6. XM_006532284.4XP_006532347.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_006532347.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    7. XM_006532285.4XP_006532348.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_006532348.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    8. XM_011248757.3XP_011247059.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_011247059.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)
    9. XM_006532286.5XP_006532349.1  homeobox protein Hox-B3 isoform X1

      See identical proteins and their annotated locations for XP_006532349.1

      UniProtKB/Swiss-Prot
      P09026, P10285, Q4PJ06, Q61680
      Conserved Domains (2) summary
      pfam00046
      Location:195248
      Homeobox; Homeobox domain
      pfam13293
      Location:369431
      DUF4074; Domain of unknown function (DUF4074)