Mouse Gene Nkx3-1 (ENSMUST00000022646.8) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus NK3 homeobox 1 (Nkx3-1), mRNA. (from RefSeq NM_010921)
Gencode Transcript: ENSMUST00000022646.8
Gencode Gene: ENSMUSG00000022061.8
Transcript (Including UTRs)
   Position: mm10 chr14:69,190,638-69,194,662 Size: 4,025 Total Exon Count: 2 Strand: +
Coding Region
   Position: mm10 chr14:69,190,705-69,192,248 Size: 1,544 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:69,190,638-69,194,662)mRNA (may differ from genome)Protein (237 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: Q3UVH8_MOUSE
DESCRIPTION: SubName: Full=NK-3 transcription factor, locus 1 (Drosophila);
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Contains 1 homeobox DNA-binding domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -21.6067-0.322 Picture PostScript Text
3' UTR -781.302414-0.324 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
IPR017970 - Homeobox_CS
IPR020479 - Homeobox_metazoa
IPR001356 - Homeodomain
IPR009057 - Homeodomain-like

Pfam Domains:
PF00046 - Homeobox domain

SCOP Domains:
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on Q3UVH8
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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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000976 transcription regulatory region sequence-specific DNA binding
GO:0000983 transcription factor activity, RNA polymerase II core promoter sequence-specific
GO:0001047 core promoter binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0004882 androgen receptor activity
GO:0008134 transcription factor binding
GO:0008656 cysteine-type endopeptidase activator activity involved in apoptotic process
GO:0030284 estrogen receptor activity
GO:0030295 protein kinase activator activity
GO:0030331 estrogen receptor binding
GO:0042826 histone deacetylase binding
GO:0043565 sequence-specific DNA binding
GO:0043621 protein self-association
GO:0044212 transcription regulatory region DNA binding
GO:0097162 MADS box domain binding

Biological Process:
GO:0001655 urogenital system development
GO:0001656 metanephros development
GO:0001756 somitogenesis
GO:0001934 positive regulation of protein phosphorylation
GO:0006355 regulation of transcription, DNA-templated
GO:0006919 activation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0007431 salivary gland development
GO:0007507 heart development
GO:0008284 positive regulation of cell proliferation
GO:0008285 negative regulation of cell proliferation
GO:0008584 male gonad development
GO:0010628 positive regulation of gene expression
GO:0010629 negative regulation of gene expression
GO:0010942 positive regulation of cell death
GO:0014068 positive regulation of phosphatidylinositol 3-kinase signaling
GO:0030521 androgen receptor signaling pathway
GO:0030850 prostate gland development
GO:0032147 activation of protein kinase activity
GO:0033574 response to testosterone
GO:0035690 cellular response to drug
GO:0035907 dorsal aorta development
GO:0043280 positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0043491 protein kinase B signaling
GO:0043569 negative regulation of insulin-like growth factor receptor signaling pathway
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045930 negative regulation of mitotic cell cycle
GO:0045931 positive regulation of mitotic cell cycle
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048754 branching morphogenesis of an epithelial tube
GO:0050680 negative regulation of epithelial cell proliferation
GO:0051781 positive regulation of cell division
GO:0060037 pharyngeal system development
GO:0060442 branching involved in prostate gland morphogenesis
GO:0060664 epithelial cell proliferation involved in salivary gland morphogenesis
GO:0060770 negative regulation of epithelial cell proliferation involved in prostate gland development
GO:0071347 cellular response to interleukin-1
GO:0071356 cellular response to tumor necrosis factor
GO:0071383 cellular response to steroid hormone stimulus
GO:0071456 cellular response to hypoxia
GO:0071850 mitotic cell cycle arrest
GO:0071899 negative regulation of estrogen receptor binding
GO:2000836 positive regulation of androgen secretion
GO:2001022 positive regulation of response to DNA damage stimulus
GO:2001235 positive regulation of apoptotic signaling pathway
GO:2001244 positive regulation of intrinsic apoptotic signaling pathway

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  BC132401 - Mus musculus NK-3 transcription factor, locus 1 (Drosophila), mRNA (cDNA clone MGC:164032 IMAGE:40130678), complete cds.
BC132427 - Mus musculus NK-3 transcription factor, locus 1 (Drosophila), mRNA (cDNA clone MGC:164058 IMAGE:40130704), complete cds.
AK137281 - Mus musculus adult male urinary bladder cDNA, RIKEN full-length enriched library, clone:9530090D16 product:NK-3 transcription factor, locus 1 (Drosophila), full insert sequence.
U88542 - Mus musculus homeobox protein Nkx3.1 mRNA, complete cds.
BC050109 - Mus musculus cDNA clone IMAGE:30021989, containing frame-shift errors.
U73460 - Mus musculus homeobox-containing protein Nkx-3.1 mRNA, complete cds.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu05200 - Pathways in cancer
mmu05215 - Prostate cancer

-  Other Names for This Gene
  Alternate Gene Symbols: mCG_4555, NM_010921, Q3UVH8, Q3UVH8_MOUSE, uc007umd.1, uc007umd.2
UCSC ID: uc007umd.2
RefSeq Accession: NM_010921
Protein: Q3UVH8 CCDS: CCDS27237.1

-  Gene Model Information
  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.