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Hoxb3 homeo box B3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303488, updated on 17-Aug-2024

Summary

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Official Symbol
Hoxb3provided by RGD
Official Full Name
homeo box B3provided by RGD
Primary source
RGD:1310780
See related
EnsemblRapid:ENSRNOG00000008313 AllianceGenome:RGD:1310780
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including angiogenesis; embryonic skeletal system morphogenesis; and positive regulation of transcription by RNA polymerase II. Predicted to act 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. Orthologous to human HOXB3 (homeobox B3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 61.6), Adrenal (RPKM 46.7) and 7 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Hoxb3 in Genome Data Viewer
Location:
10q26
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (81786001..81810655)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (81258739..81314134)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (84170629..84196823)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene microRNA 10a Neighboring gene homeo box B4 Neighboring gene uncharacterized LOC102550580 Neighboring gene homeobox B2 Neighboring gene homeo box B1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Regulatory interactions between the human HOXB1, HOXB2, and HOXB3 proteins and the upstream sequence of the Otx2 gene in embryonal carcinoma cells. Guazzi S, et al. J Biol Chem, 1998 May 1. PMID 9556594
  2. Hoxa9/hoxb3/hoxb4 compound null mice display severe hematopoietic defects. Magnusson M, et al. Exp Hematol, 2007 Sep. PMID 17761289
  3. Hox group 3 paralogous genes act synergistically in the formation of somitic and neural crest-derived structures. Manley NR, et al. Dev Biol, 1997 Dec 15. PMID 9441667
  4. HOX gene analysis of endothelial cell differentiation in human bone marrow-derived mesenchymal stem cells. Chung N, et al. Mol Biol Rep, 2009 Feb. PMID 17972163
  5. Hox group 3 paralogs regulate the development and migration of the thymus, thyroid, and parathyroid glands. Manley NR, et al. Dev Biol, 1998 Mar 1. PMID 9520319

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. HOXB3 promotes trophoblast cell proliferation, invasion, and migration to alleviate preeclampsia via mediating the Notch/Wnt/beta-catenin pathway.
    Title: HOXB3 promotes trophoblast cell proliferation, invasion, and migration to alleviate preeclampsia via mediating the Notch/Wnt/β-catenin pathway.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in angiogenesis ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cartilage development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within definitive hemopoiesis ISO
Inferred from Sequence Orthology
more info
  
involved_in embryonic skeletal system morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within embryonic skeletal system morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within face development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within hematopoietic progenitor cell differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within thyroid gland development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
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

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_001107042.1 → NP_001100512.1  homeobox protein Hox-B3

    See identical proteins and their annotated locations for NP_001100512.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473948
    UniProtKB/TrEMBL
    A6HIE8
    Conserved Domains (2) summary
    pfam00046
    Location:191 → 244
    Homeobox; Homeobox domain
    pfam13293
    Location:365 → 427
    DUF4074; Domain of unknown function (DUF4074)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    81786001..81810655
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017597314.3 → XP_017452803.1  homeobox protein Hox-B3 isoform X1

    UniProtKB/TrEMBL
    A6HIE8
    Conserved Domains (2) summary
    pfam00046
    Location:191 → 244
    Homeobox; Homeobox domain
    pfam13293
    Location:365 → 427
    DUF4074; Domain of unknown function (DUF4074)

  2. XM_017597315.3 → XP_017452804.1  homeobox protein Hox-B3 isoform X1

    UniProtKB/TrEMBL
    A6HIE8
    Conserved Domains (2) summary
    pfam00046
    Location:191 → 244
    Homeobox; Homeobox domain
    pfam13293
    Location:365 → 427
    DUF4074; Domain of unknown function (DUF4074)

  3. XM_006247194.5 → XP_006247256.1  homeobox protein Hox-B3 isoform X2

    See identical proteins and their annotated locations for XP_006247256.1

    UniProtKB/TrEMBL
    B2RYQ0, F7FL39
    Related
    ENSRNOP00000011027.5, ENSRNOT00000011027.8
    Conserved Domains (2) summary
    pfam00046
    Location:190 → 243
    Homeobox; Homeobox domain
    pfam13293
    Location:364 → 426
    DUF4074; Domain of unknown function (DUF4074)

  4. XM_039086074.2 → XP_038942002.1  homeobox protein Hox-B3 isoform X1

    UniProtKB/TrEMBL
    A6HIE8
    Conserved Domains (2) summary
    pfam00046
    Location:191 → 244
    Homeobox; Homeobox domain
    pfam13293
    Location:365 → 427
    DUF4074; Domain of unknown function (DUF4074)

  5. XM_039086075.2 → XP_038942003.1  homeobox protein Hox-B3 isoform X1

    UniProtKB/TrEMBL
    A6HIE8
    Conserved Domains (2) summary
    pfam00046
    Location:191 → 244
    Homeobox; Homeobox domain
    pfam13293
    Location:365 → 427
    DUF4074; Domain of unknown function (DUF4074)
Nucleotide Protein Strain
Heading Accession and Version

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