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    RUNX2 runt-related transcription factor 2 [ Homo sapiens ]

    Gene ID: 860, updated on 11-May-2012

    Summary

    Official Symbol
    RUNX2provided by HGNC
    Official Full Name
    runt-related transcription factor 2provided by HGNC
    Primary source
    HGNC:10472
    Locus tag
    RP1-166H4.1
    See related
    Ensembl:ENSG00000124813; HPRD:02566; MIM:600211; Vega:OTTHUMG00000014774
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CCD; AML3; CCD1; OSF2; CBFA1; OSF-2; PEA2aA; PEBP2A1; PEBP2A2; PEBP2aA; PEBP2aA1; MGC120022; MGC120023
    Summary
    This gene is a member of the RUNX family of transcription factors and encodes a nuclear protein with an Runt DNA-binding domain. This protein is essential for osteoblastic differentiation and skeletal morphogenesis and acts as a scaffold for nucleic acids and regulatory factors involved in skeletal gene expression. The protein can bind DNA both as a monomer or, with more affinity, as a subunit of a heterodimeric complex. Mutations in this gene have been associated with the bone development disorder cleidocranial dysplasia (CCD). Transcript variants that encode different protein isoforms result from the use of alternate promoters as well as alternate splicing. [provided by RefSeq, Jul 2008]

    Genomic context

    Location :
    6p21
    Sequence :
    Chromosome: 6; NC_000006.11 (45296054..45518819)
    See RUNX2 in Epigenomics, MapViewer

    Chromosome 6 - NC_000006.11Genomic Context describing neighboring genes Neighboring gene suppressor of Ty 3 homolog (S. cerevisiae) Neighboring gene poly(rC) binding protein 2 pseudogene Neighboring gene microRNA 586 Neighboring gene chloride intracellular channel 5 Neighboring gene ectonucleotide pyrophosphatase/phosphodiesterase 4 (putative)

    Genomic regions, transcripts, and products

    Bibliography

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    Phenotypes

    Cleidocranial dysplasia

    Summary from GeneReviews: Go to GeneReviews

    Disease Characteristics
    Cleidocranial dysplasia (referred to as CCD in this review) is a skeletal dysplasia characterized by delayed closure of the cranial sutures, hypoplastic or aplastic clavicles, and multiple dental abnormalities. Manifestations may vary among individuals in the same family. The most prominent clinical findings are abnormally large, wide-open fontanels at birth that may remain open throughout life; mid-face hypoplasia; abnormal dentition, including delayed eruption of secondary dentition, failure to shed the primary teeth, supernumerary teeth with dental crowding, and malocclusion; clavicular hypoplasia resulting in narrow, sloping shoulders that can be apposed at the midline; and hand abnormalities such as brachydactyly, tapering fingers, and short, broad thumbs. Individuals with CCD are shorter than their unaffected sibs and are more likely to have other skeletal/orthopedic problems such as pes planus, genu valgum, and scoliosis. Other medical problems include recurrent sinus infections and other upper-airway complications, recurrent ear infections, high incidence of cesarean section, and mild degree of motor delay in children under age five years.
    Diagnosis Testing
    Diagnosis of CCD is based on clinical and radiographic findings that include imaging of the cranium, thorax, pelvis, and hands. RUNX2 (CBFA1) is the only gene known to be associated with CCD. Molecular genetic testing of the RUNX2 gene detects mutations in 60%-70% of individuals with a clinical diagnosis of CCD. Such testing is available on a clinical basis.
    Genetic Counseling
    Cleidocranial dysplasia is inherited in an autosomal dominant manner. The proportion of cases caused by a de novo mutation is high. Each child of an individual with CCD has a 50% chance of inheriting the mutation. Prenatal diagnosis for pregnancies at increased risk is possible if the disease-causing mutation in the family is known.
    References

    Dental anomalies, isolated

    Many sequence variants affecting diversity of adult human height.

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    NP_004339.1 NP_000312.1 RB1    BIND  PubMed Runx2 interacts with pRb. 
    Q13950 P10275 AR    HPRD  PubMed  
    Q13950 O15169 AXIN1    HPRD  PubMed  
    Q13950 Q13951 CBFB    HPRD  PubMed  
    Q13950 P14635 CCNB1    HPRD  PubMed  
    Q13950 P06493 CDK1    HPRD  PubMed  
    Q13950 P17676 CEBPB    HPRD  PubMed  
    Q13950 O14641 DVL2    HPRD  PubMed  
    Q13950 Q09472 EP300    HPRD  PubMed  
    Q13950 P14921 ETS1    HPRD  PubMed  
    Q13950 P01100 FOS    HPRD  PubMed  
    Q13950 O15379 HDAC3    HPRD  PubMed  
    Q13950 P56524 HDAC4    HPRD  PubMed  
    Q13950 Q9UBN7 HDAC6    HPRD  PubMed  
    Q13950 P05412 JUN    HPRD  PubMed  
    Q13950 Q8WYB5 KAT6B    HPRD  PubMed  
    Q13950 Q9UJU2 LEF1    HPRD  PubMed  
    Q13950 Q9Y6R4 MAP3K4    HPRD  PubMed  
    Q13950 P35548 MSX2    HPRD  PubMed  
    Q13950 Q05655 PRKCD    HPRD  PubMed  
    Q13950 P06400 RB1    HPRD  PubMed  
    Q13950 Q15796 SMAD2    HPRD  PubMed  
    Q13950 P84022 SMAD3    HPRD  PubMed  
    Q13950 O43541 SMAD6    HPRD  PubMed  
    Q13950 Q15573 TAF1A    HPRD  PubMed  
    Q13950 P17480 UBTF    HPRD  PubMed  
    Q13950 P13010 XRCC5    HPRD  PubMed  
    Q13950 P12956 XRCC6    HPRD  PubMed  
    Q13950 P46937 YAP1    HPRD  PubMed  
    BioGRID:107308 BioGRID:115486 ALYREF    BioGRID  PubMed Reconstituted Complex 
    BioGRID:107308 BioGRID:107125 BMPR1A    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:107777 CREBBP    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:108347 EP300    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:108414 ETS1    BioGRID  PubMed Reconstituted Complex 
    BioGRID:107308 BioGRID:108636 FOS    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex; Two-hybrid 
    BioGRID:107308 BioGRID:109315 HDAC1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:114368 HDAC3    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:107308 BioGRID:115106 HDAC4    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:115331 HDAC5    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:115330 HDAC6    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:119613 HDAC7    BioGRID  PubMed Affinity Capture-Western; Co-localization; Reconstituted Complex 
    BioGRID:107308 BioGRID:109514 HES1    BioGRID  PubMed Affinity Capture-Western; Co-localization 
    BioGRID:107308 BioGRID:109928 JUN    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex; Two-hybrid 
    BioGRID:107308 BioGRID:114375 KAT2B    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:117069 KAT6B    BioGRID  PubMed Affinity Capture-Western; Biochemical Activity; Reconstituted Complex 
    BioGRID:107308 BioGRID:110594 MSX2    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:114012 NR0B2    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:115700 RBM14    BioGRID  PubMed Affinity Capture-Western; Co-localization; Reconstituted Complex 
    BioGRID:107308 BioGRID:110261 SMAD1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:110262 SMAD2    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:110263 SMAD3    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:107308 BioGRID:110265 SMAD5    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:112545 SOX9    BioGRID  PubMed FRET 
    BioGRID:107308 BioGRID:115563 STUB1    BioGRID  PubMed Affinity Capture-Western; Two-hybrid 
    BioGRID:107308 BioGRID:112943 TLE1    BioGRID  PubMed Affinity Capture-Western; Co-localization 
    BioGRID:107308 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS; Affinity Capture-Western 
    BioGRID:107308 BioGRID:113353 XRCC5    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:108822 XRCC6    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:107308 BioGRID:115684 YAP1    BioGRID  PubMed Reconstituted Complex 

    General gene information

    Markers

    Homology

    Pathways from BioSystems

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    sequence-specific DNA binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    negative regulation of transcription, DNA-dependent IDA
    Inferred from Direct Assay
    more info
    PubMed 
    ossification TAS
    Traceable Author Statement
    more info
    PubMed 
    osteoblast differentiation IEP
    Inferred from Expression Pattern
    more info
     
    osteoblast differentiation TAS
    Traceable Author Statement
    more info
    PubMed 
    positive regulation of transcription, DNA-dependent IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of transcription, DNA-dependent NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    nuclear chromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    runt-related transcription factor 2
    Names
    runt-related transcription factor 2
    CBF-alpha-1
    PEA2-alpha A
    PEBP2-alpha A
    oncogene AML-3
    acute myeloid leukemia 3 protein
    SL3-3 enhancer factor 1 alpha A subunit
    osteoblast-specific transcription factor 2
    SL3/AKV core-binding factor alpha A subunit
    core-binding factor, runt domain, alpha subunit 1
    polyomavirus enhancer-binding protein 2 alpha A subunit

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_008020.1 RefSeqGene

      Range
      5001..227766
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001015051.3NP_001015051.3  runt-related transcription factor 2 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) is the shorter transcript of the two P1 transcripts. It lacks an in-frame exon in the 3' coding region, compared to variant 1, which results in a shorter protein (isoform b). Isoform b is also referred to as the OSF2/CBF1b isoform.
      Source sequence(s)
      AL096865, AL161907, AL358135
      Consensus CDS
      CCDS43468.2
      UniProtKB/Swiss-Prot
      Q13950
      Related
      ENSP00000360491, OTTHUMP00000016535, ENST00000371436, OTTHUMT00000040756
      Conserved Domains (2) summary
      pfam00853
      Location:100233
      Blast Score: 693
      Runt; Runt domain
      pfam08504
      Location:422499
      Blast Score: 291
      RunxI; Runx inhibition domain
    2. NM_001024630.3NP_001019801.3  runt-related transcription factor 2 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) is the longer transcript of the two transcripts transcribed from promoter 1 (P1) and encodes the longer protein (isoform a) of these two transcripts. Isoform a is also referred to as the OSF2/CBFA1a isoform.
      Source sequence(s)
      AL096865, AL161907, AL358135
      Consensus CDS
      CCDS43467.2
      UniProtKB/Swiss-Prot
      Q13950
      Related
      ENSP00000420707, OTTHUMP00000016533, ENST00000465038, OTTHUMT00000040754
      Conserved Domains (2) summary
      pfam00853
      Location:100233
      Blast Score: 695
      Runt; Runt domain
      pfam08504
      Location:444521
      Blast Score: 294
      RunxI; Runx inhibition domain
    3. NM_004348.3NP_004339.3  runt-related transcription factor 2 isoform c

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) is transcribed from an alternate promoter (P2) and contains a different segment for the 5' UTR and 5' coding region than variant 1. It encodes a protein (isoform c) with a shorter and distinct N-terminus when it is compared to isoform a.
      Source sequence(s)
      AL096865, AL161907, CD001961, L40992
      Consensus CDS
      CCDS4913.1
      UniProtKB/Swiss-Prot
      Q13950
      Related
      ENSP00000352514, ENST00000359524
      Conserved Domains (2) summary
      pfam00853
      Location:86219
      Blast Score: 693
      Runt; Runt domain
      pfam08504
      Location:430507
      Blast Score: 293
      RunxI; Runx inhibition domain

    RefSeqs of Annotated Genomes: Build 37.3

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

    Reference GRCh37.p5 Primary Assembly

    Genomic

    1. NC_000006.11 Reference GRCh37.p5 Primary Assembly

      Range
      45296054..45518819
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000138.1 Alternate HuRef

      Range
      45018738..45241794
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

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