Human Gene HOXB3 (uc002ino.3) Description and Page Index
  Description: Homo sapiens homeobox B3 (HOXB3), mRNA.
RefSeq Summary (NM_002146): This gene is a member of the Antp homeobox family and encodes a nuclear protein with a homeobox DNA-binding domain. It is included in a cluster of homeobox B genes located on chromosome 17. The encoded protein functions as a sequence-specific transcription factor that is involved in development. Increased expression of this gene is associated with a distinct biologic subset of acute myeloid leukemia (AML). [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr17:46,626,232-46,651,810 Size: 25,579 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr17:46,627,696-46,629,836 Size: 2,141 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr17:46,626,232-46,651,810)mRNA (may differ from genome)Protein (431 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
neXtProtOMIMPubMedReactomeStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Homeobox protein Hox-B3; AltName: Full=Homeobox protein Hox-2.7; AltName: Full=Homeobox protein Hox-2G;
FUNCTION: Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.
DEVELOPMENTAL STAGE: Expressed in whole embryos and fetuses at 5-9 weeks from conception.
SIMILARITY: Belongs to the Antp homeobox family.
SIMILARITY: Contains 1 homeobox DNA-binding domain.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 18.10 RPKM in Colon - Sigmoid
Total median expression: 205.66 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -313.59858-0.365 Picture PostScript Text
3' UTR -442.851464-0.302 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR025281 - DUF4074
IPR001827 - Homeobox_Antennapedia_CS
IPR017970 - Homeobox_CS
IPR020479 - Homeobox_metazoa
IPR001356 - Homeodomain
IPR009057 - Homeodomain-like

Pfam Domains:
PF00046 - Homeobox domain
PF13293 - Domain of unknown function (DUF4074)

SCOP Domains:
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on P14651
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001525 angiogenesis
GO:0002244 hematopoietic progenitor cell differentiation
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0007275 multicellular organism development
GO:0009952 anterior/posterior pattern specification
GO:0021546 rhombomere development
GO:0021615 glossopharyngeal nerve morphogenesis
GO:0030878 thyroid gland development
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048704 embryonic skeletal system morphogenesis
GO:0050767 regulation of neurogenesis
GO:0051216 cartilage development
GO:0060216 definitive hemopoiesis
GO:0060324 face development

Cellular Component:
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  AK316245 - Homo sapiens cDNA, FLJ79144 complete cds, highly similar to Homeobox protein Hox-B3.
AK291182 - Homo sapiens cDNA FLJ78523 complete cds, highly similar to Homo sapiens homeo box B3 (HOXB3), mRNA.
AK315102 - Homo sapiens cDNA, FLJ96060, highly similar to Homo sapiens homeo box B3 (HOXB3), mRNA.
AK027609 - Homo sapiens cDNA FLJ14703 fis, clone NT2RP3000512, highly similar to Homeobox protein Hox-B3.
JD075546 - Sequence 56570 from Patent EP1572962.
JD063618 - Sequence 44642 from Patent EP1572962.
U59298 - Human hox homeobox transcription factor (HOXB3) mRNA, complete cds.
JD445021 - Sequence 426045 from Patent EP1572962.
JD507480 - Sequence 488504 from Patent EP1572962.
JD041554 - Sequence 22578 from Patent EP1572962.
X16667 - Human HOX2G mRNA from the Hox2 locus.
JD386132 - Sequence 367156 from Patent EP1572962.
JD151386 - Sequence 132410 from Patent EP1572962.
JD260009 - Sequence 241033 from Patent EP1572962.
JD322784 - Sequence 303808 from Patent EP1572962.
AK309721 - Homo sapiens cDNA, FLJ99762.
AK299226 - Homo sapiens cDNA FLJ51054 complete cds, highly similar to Homeobox protein Hox-B3.
AK299265 - Homo sapiens cDNA FLJ50179 complete cds, highly similar to Homeobox protein Hox-B3.
JD484042 - Sequence 465066 from Patent EP1572962.
JD482366 - Sequence 463390 from Patent EP1572962.
BC172242 - Synthetic construct Homo sapiens clone IMAGE:100068936, MGC:198947 homeobox B3 (HOXB3) mRNA, encodes complete protein.
BC172550 - Synthetic construct Homo sapiens clone IMAGE:100069244, MGC:199255 homeobox B3 (HOXB3) mRNA, encodes complete protein.
AB463750 - Synthetic construct DNA, clone: pF1KB9726, Homo sapiens HOXB3 gene for homeobox B3, without stop codon, in Flexi system.
DQ597799 - Homo sapiens piRNA piR-35865, complete sequence.
JD234010 - Sequence 215034 from Patent EP1572962.
JD493953 - Sequence 474977 from Patent EP1572962.
JD548350 - Sequence 529374 from Patent EP1572962.
JD257144 - Sequence 238168 from Patent EP1572962.
JD524186 - Sequence 505210 from Patent EP1572962.
JD468143 - Sequence 449167 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P14651 (Reactome details) participates in the following event(s):

R-HSA-5617472 Activation of anterior HOX genes in hindbrain development during early embryogenesis
R-HSA-5619507 Activation of HOX genes during differentiation
R-HSA-1266738 Developmental Biology

-  Other Names for This Gene
  Alternate Gene Symbols: A8K567, D3DTV3, HOX2G, HXB3_HUMAN, NM_002146, NP_002137, O95615, P14651, P17484
UCSC ID: uc002ino.3
RefSeq Accession: NM_002146
Protein: P14651 (aka HXB3_HUMAN)
CCDS: CCDS11528.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_002146.4
exon count: 4CDS single in 3' UTR: no RNA size: 3627
ORF size: 1296CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1737.50frame shift in genome: no % Coverage: 99.75
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 434# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.