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Aliases for RUNX3 Gene

Aliases for RUNX3 Gene

  • Runt-Related Transcription Factor 3 2 3
  • CBFA3 3 4 6
  • AML2 3 4 6
  • Polyomavirus Enhancer-Binding Protein 2 Alpha C Subunit 3 4
  • SL3/AKV Core-Binding Factor Alpha C Subunit 3 4
  • SL3-3 Enhancer Factor 1 Alpha C Subunit 3 4
  • Core-Binding Factor Subunit Alpha-3 3 4
  • Acute Myeloid Leukemia 2 Protein 3 4
  • Oncogene AML-2 3 4
  • PEBP2-Alpha C 3 4
  • PEA2-Alpha C 3 4
  • CBF-Alpha-3 3 4
  • PEBP2A3 4 6
  • Core-Binding Factor, Runt Domain, Alpha Subunit 3 3
  • Acute Myeloid Leukemia Gene 2 3
  • Transcription Factor AML2 3
  • PEBP2 Alpha C 3
  • PEA2 Alpha C 3
  • PEBP2aC 3

External Ids for RUNX3 Gene

Previous HGNC Symbols for RUNX3 Gene

  • CBFA3

Previous GeneCards Identifiers for RUNX3 Gene

  • GC01M024749
  • GC01M024294
  • GC01M024205
  • GC01M024577
  • GC01M024971
  • GC01M025098
  • GC01M025226
  • GC01M023479

Summaries for RUNX3 Gene

Entrez Gene Summary for RUNX3 Gene

  • This gene encodes a member of the runt domain-containing family of transcription factors. A heterodimer of this protein and a beta subunit forms a complex that binds to the core DNA sequence 5'-PYGPYGGT-3' found in a number of enhancers and promoters, and can either activate or suppress transcription. It also interacts with other transcription factors. It functions as a tumor suppressor, and the gene is frequently deleted or transcriptionally silenced in cancer. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for RUNX3 Gene

RUNX3 (Runt-Related Transcription Factor 3) is a Protein Coding gene. Diseases associated with RUNX3 include salivary gland adenoid cystic carcinoma and testicular yolk sac tumor. Among its related pathways are Endochondral Ossification and SIDS Susceptibility Pathways. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and RNA polymerase II regulatory region sequence-specific DNA binding. An important paralog of this gene is RUNX1.

UniProtKB/Swiss-Prot for RUNX3 Gene

  • CBF binds to the core site, 5-PYGPYGGT-3, of a number of enhancers and promoters, including murine leukemia virus, polyomavirus enhancer, T-cell receptor enhancers, lck, IL-3 and GM-CSF promoters

Gene Wiki entry for RUNX3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RUNX3 Gene

Genomics for RUNX3 Gene

Regulatory Elements for RUNX3 Gene

Genomic Location for RUNX3 Gene

Start:
24,899,511 bp from pter
End:
24,965,121 bp from pter
Size:
65,611 bases
Orientation:
Minus strand

Genomic View for RUNX3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RUNX3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RUNX3 Gene

Proteins for RUNX3 Gene

  • Protein details for RUNX3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13761-RUNX3_HUMAN
    Recommended name:
    Runt-related transcription factor 3
    Protein Accession:
    Q13761
    Secondary Accessions:
    • B1AJV5
    • Q12969
    • Q13760

    Protein attributes for RUNX3 Gene

    Size:
    415 amino acids
    Molecular mass:
    44356 Da
    Quaternary structure:
    • Heterodimer of an alpha and a beta subunit. The alpha subunit binds DNA as a monomer and through the Runt domain. DNA-binding is increased by heterodimerization. Interacts with TLE1 and SUV39H1. The tyrosine phosphorylated form (via runt domain) interacts with SRC (via protein kinase domain). Interacts with FYN and LCK. Interacts with FOXP3.

    Alternative splice isoforms for RUNX3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RUNX3 Gene

Proteomics data for RUNX3 Gene at MOPED

Post-translational modifications for RUNX3 Gene

  • Phosphorylated on tyrosine residues by SRC. Phosphorylated by LCK and FYN.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RUNX3 Gene

No data available for DME Specific Peptides for RUNX3 Gene

Domains for RUNX3 Gene

Suggested Antigen Peptide Sequences for RUNX3 Gene

Graphical View of Domain Structure for InterPro Entry

Q13761

UniProtKB/Swiss-Prot:

RUNX3_HUMAN :
  • Q13761
Domain:
  • A proline/serine/threonine rich region at the C-terminus is necessary for transcriptional activation of target genes
  • Contains 1 Runt domain.
genes like me logo Genes that share domains with RUNX3: view

No data available for Gene Families for RUNX3 Gene

Function for RUNX3 Gene

Molecular function for RUNX3 Gene

GENATLAS Biochemistry: Drosophila Runt pair rule-related transcription factor 3,expressed in various lymphoid and myeloid cells,involved in hematopoiesis and osteogenesis
UniProtKB/Swiss-Prot Function: CBF binds to the core site, 5-PYGPYGGT-3, of a number of enhancers and promoters, including murine leukemia virus, polyomavirus enhancer, T-cell receptor enhancers, lck, IL-3 and GM-CSF promoters

Gene Ontology (GO) - Molecular Function for RUNX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding ISS --
GO:0000981 sequence-specific DNA binding RNA polymerase II transcription factor activity ISS --
GO:0003677 DNA binding --
GO:0003700 sequence-specific DNA binding transcription factor activity TAS 7607690
GO:0005515 protein binding IPI 17377532
genes like me logo Genes that share ontologies with RUNX3: view
genes like me logo Genes that share phenotypes with RUNX3: view

Animal Models for RUNX3 Gene

MGI Knock Outs for RUNX3:

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for RUNX3 Gene

Localization for RUNX3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RUNX3 Gene

Nucleus. Cytoplasm. Note=The tyrosine phosphorylated form localizes to the cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RUNX3 Gene COMPARTMENTS Subcellular localization image for RUNX3 gene
Compartment Confidence
nucleus 5
plasma membrane 1

Gene Ontology (GO) - Cellular Components for RUNX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin ISS --
GO:0005634 nucleus IDA --
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm IDA --
GO:0005794 Golgi apparatus IDA --
genes like me logo Genes that share ontologies with RUNX3: view

Pathways for RUNX3 Gene

genes like me logo Genes that share pathways with RUNX3: view

Pathways by source for RUNX3 Gene

1 Cell Signaling Technology pathway for RUNX3 Gene
2 R&D Systems pathways for RUNX3 Gene

Gene Ontology (GO) - Biological Process for RUNX3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter ISS --
GO:0001503 ossification IBA --
GO:0002062 chondrocyte differentiation IBA --
GO:0006355 regulation of transcription, DNA-templated NAS 7622058
GO:0006357 regulation of transcription from RNA polymerase II promoter IBA --
genes like me logo Genes that share ontologies with RUNX3: view

Compounds for RUNX3 Gene

(5) Novoseek inferred chemical compound relationships for RUNX3 Gene

Compound -log(P) Hits PubMed IDs
5-aza-2deoxycytidine 76.1 11
oligonucleotide 0 1
serine 0 1
retinoic acid 0 6
vegf 0 5
genes like me logo Genes that share compounds with RUNX3: view

Transcripts for RUNX3 Gene

Unigene Clusters for RUNX3 Gene

Runt-related transcription factor 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RUNX3 Gene

No ASD Table

Relevant External Links for RUNX3 Gene

GeneLoc Exon Structure for
RUNX3
ECgene alternative splicing isoforms for
RUNX3

Expression for RUNX3 Gene

mRNA expression in normal human tissues for RUNX3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RUNX3 Gene

This gene is overexpressed in Whole Blood (16.1) and Spleen (4.8).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RUNX3 Gene

SOURCE GeneReport for Unigene cluster for RUNX3 Gene Hs.170019

genes like me logo Genes that share expressions with RUNX3: view

No data available for mRNA Expression by UniProt/SwissProt for RUNX3 Gene

Orthologs for RUNX3 Gene

This gene was present in the common ancestor of animals.

Orthologs for RUNX3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RUNX3 35
  • 99.38 (n)
  • 100 (a)
RUNX3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RUNX3 35
  • 91.58 (n)
  • 94.36 (a)
RUNX3 36
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LOC487366 35
  • 92.12 (n)
  • 95.38 (a)
RUNX3 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Runx3 35
  • 89.18 (n)
  • 93.13 (a)
Runx3 16
Runx3 36
  • 91 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RUNX3 36
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 88 (a)
ManyToMany
-- 36
  • 40 (a)
ManyToMany
rat
(Rattus norvegicus)
Mammalia Runx3 35
  • 88.67 (n)
  • 92.8 (a)
chicken
(Gallus gallus)
Aves RUNX3 35
  • 80.56 (n)
  • 87.47 (a)
RUNX3 36
  • 83 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RUNX3 36
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia runx3 35
  • 72.55 (n)
  • 81.07 (a)
zebrafish
(Danio rerio)
Actinopterygii -- 35
runx3 35
  • 68.02 (n)
  • 71.5 (a)
runx3 36
  • 62 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta lz 36
  • 14 (a)
ManyToMany
run 36
  • 20 (a)
ManyToMany
RunxA 36
  • 18 (a)
ManyToMany
RunxB 36
  • 17 (a)
ManyToMany
CG1379 37
  • 73 (a)
run 37
  • 67 (a)
CG15455 37
  • 67 (a)
lz 37
  • 63 (a)
worm
(Caenorhabditis elegans)
Secernentea rnt-1 36
  • 28 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 65 (a)
OneToMany
Species with no ortholog for RUNX3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RUNX3 Gene

ENSEMBL:
Gene Tree for RUNX3 (if available)
TreeFam:
Gene Tree for RUNX3 (if available)

Paralogs for RUNX3 Gene

Paralogs for RUNX3 Gene

Selected SIMAP similar genes for RUNX3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with RUNX3: view

Variants for RUNX3 Gene

Sequence variations from dbSNP and Humsavar for RUNX3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs13157 -- 24,901,186(-) ATGTC(C/T)CTGTC utr-variant-3-prime
rs736553 -- 24,915,702(+) GCCCC(C/T)GAGGC intron-variant
rs742230 -- 24,924,933(-) AACAA(C/T)AGGGC intron-variant
rs742231 -- 24,924,965(-) AGACA(C/T)GCACC intron-variant
rs742232 -- 24,925,215(-) TCTGC(A/G)GTGCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RUNX3 Gene

Variant ID Type Subtype PubMed ID
nsv870740 CNV Gain 21882294
nsv508581 CNV Loss 20534489
nsv871803 CNV Loss 21882294

Relevant External Links for RUNX3 Gene

HapMap Linkage Disequilibrium report
RUNX3
Human Gene Mutation Database (HGMD)
RUNX3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RUNX3 Gene

Disorders for RUNX3 Gene

(3) University of Copenhagen DISEASES for RUNX3 Gene

(28) Novoseek inferred disease relationships for RUNX3 Gene

Disease -log(P) Hits PubMed IDs
microsatellite instability 81.1 5
gastric cancer 75.4 117
colorectal cancer 66.8 36
tumors 59.8 134
gastric tumor 58.5 7

Relevant External Links for RUNX3

Genetic Association Database (GAD)
RUNX3
Human Genome Epidemiology (HuGE) Navigator
RUNX3
genes like me logo Genes that share disorders with RUNX3: view

No data available for UniProtKB/Swiss-Prot for RUNX3 Gene

Publications for RUNX3 Gene

  1. Genetic variants in RUNX3 and risk of bladder cancer: a haplotype-based analysis. (PMID: 18684727) Zhang Z. … Zhang Z. (Carcinogenesis 2008) 3 23 48
  2. [The relationship between RUNX3 gene mutation and keloid]. (PMID: 18717361) Zhang G. … Yu Q. (Zhonghua Zheng Xing Wai Ke Za Zhi 2008) 3 23 48
  3. Genetic variants in the Runt-related transcription factor 3 gene contribute to gastric cancer risk in a Chinese population. (PMID: 19552756) Wu D. … Zhang Z. (Cancer Sci. 2009) 3 23 48
  4. Src kinase phosphorylates RUNX3 at tyrosine residues and localizes the protein in the cytoplasm. (PMID: 20100835) Goh Y.M. … Bae S.C. (J. Biol. Chem. 2010) 3 4 23
  5. Chromatin immunoprecipitation and association study revealed a possible role of Runt-related transcription factor 3 in the ulcerative colitis of Chinese population. (PMID: 20392673) Guo C. … Ding J. (Clin. Immunol. 2010) 3 23 48

Products for RUNX3 Gene

Sources for RUNX3 Gene

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