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    Hoxb3 homeobox B3 [ Mus musculus (house mouse) ]

    Gene ID: 15410, updated on 18-Apr-2024

    Summary

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    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 animal organ development; face development; and nervous 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 skin. Orthologous to human HOXB3 (homeobox B3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in adrenal adult (RPKM 10.4), genital fat pad adult (RPKM 3.2) and 17 other tissues See more
    Orthologs
    human all
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    Genomic context

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    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Hoxb3 deficiency impairs B lymphopoiesis in mouse bone marrow. Ko KH, et al. Exp Hematol, 2007 Mar. PMID 17309827
    2. Auto/cross-regulation of Hoxb3 expression in posterior hindbrain and spinal cord. Yau TO, et al. Dev Biol, 2002 Dec 15. PMID 12482716
    3. Regulatory analysis of the mouse Hoxb3 gene: multiple elements work in concert to direct temporal and spatial patterns of expression. Kwan CT, et al. Dev Biol, 2001 Apr 1. PMID 11254356
    4. The 5'-sequence of the murine Hox-b3 (Hox-2.7) gene and its intron contain multiple transcription-regulatory elements. Brown WM, et al. Int J Biochem, 1994 Dec. PMID 7890121
    5. Multiple coding and non-coding RNAs in the Hoxb3 locus and their spatial expression patterns during mouse embryogenesis. Chan KT, et al. Biochem Biophys Res Commun, 2010 Jul 23. PMID 20515659

    See all (101) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. identified a novel Hoxb3 binding site S3 on the Hoxb1 locus and confirmed protein binding to this site in hindbrain tissues from the Hoxb3(Tg) mutant
      Title: Hoxb3 negatively regulates Hoxb1 expression in mouse hindbrain patterning.
    2. these results suggest that the multiple non-coding RNAs could be involved in the regulation of Hoxb3.
      Title: Multiple coding and non-coding RNAs in the Hoxb3 locus and their spatial expression patterns during mouse embryogenesis.
    3. The Hoxb3 gene plays an essential role in regulating B lymphopoiesis in the BM of adult mice.
      Title: Hoxb3 deficiency impairs B lymphopoiesis in mouse bone marrow.
    4. In this expt. mice with a compound deficiency in hoxa9, hoxb3 and hoxb4 (hoxa9/b3/b4) were investigated for evidence of synergy between these genes in hematopoiesis.
      Title: Hoxa9/hoxb3/hoxb4 compound null mice display severe hematopoietic defects.
    5. Results suggest that members of the Hox groups (Hoxa3, Hoxb3, Hoxd3) coordinate both suppression and activation mechanisms that ensure distinction between the multiple rhombomeres in the developing hindbrain.
      Title: Hox3 genes coordinate mechanisms of genetic suppression and activation in the generation of branchial and somatic motoneurons.
    6. b3IIIa in the Hoxb3 gene locus-lacZ transgene was expressed in a subset of enteric neuroblasts during early development of the gut
      Title: Hoxb3 vagal neural crest-specific enhancer element for controlling enteric nervous system development.
    7. These data suggest a direct physiological role of Hoxb4 and Hoxb3 in regulating stem cell regeneration and that these genes are required for maximal proliferative response.
      Title: Reduced proliferative capacity of hematopoietic stem cells deficient in Hoxb3 and Hoxb4.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    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 multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    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

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

    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_001079869.1 → NP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    2. NM_010458.2 → NP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      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_006532290.4 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    2. XM_006532289.5 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    3. XM_006532288.3 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    4. XM_006532283.5 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    5. XM_006532291.3 → XP_006532354.1  homeobox protein Hox-B3 isoform X2

      Conserved Domains (2) summary
      pfam00046
      Location:194 → 247
      Homeobox; Homeobox domain
      pfam13293
      Location:368 → 430
      DUF4074; Domain of unknown function (DUF4074)

    6. XM_006532284.4 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    7. XM_006532285.4 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    8. XM_011248757.3 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)

    9. XM_006532286.5 → XP_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:195 → 248
      Homeobox; Homeobox domain
      pfam13293
      Location:369 → 431
      DUF4074; Domain of unknown function (DUF4074)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P09026.4 GenPept UniProtKB/Swiss-Prot:P09026

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