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Runx2 RUNX family transcription factor 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 367218, updated on 10-Nov-2022

Summary

Official Symbol
Runx2provided by RGD
Official Full Name
RUNX family transcription factor 2provided by RGD
Primary source
RGD:2282
See related
Ensembl:ENSRNOG00000020193 AllianceGenome:RGD:2282
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
Also known as
Cbfa1; OSF-2; CBF-alpha-1
Summary
Enables DNA-binding transcription factor binding activity; general transcription initiation factor binding activity; and histone deacetylase binding activity. Involved in cellular response to fibroblast growth factor stimulus; osteoblast differentiation; and positive regulation of ossification. Located in nucleus. Human ortholog(s) of this gene implicated in cleidocranial dysplasia and metaphyseal dysplasia-maxillary hypoplasia-brachydacty syndrome. Orthologous to human RUNX2 (RUNX family transcription factor 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 29.2), Lung (RPKM 17.9) and 9 other tissues See more
Orthologs
NEW
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Genomic context

See Runx2 in Genome Data Viewer
Location:
9q13
Exon count:
10
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (16167504..16492826)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (18564743..18773092)

Chromosome 9 - NC_051344.1Genomic Context describing neighboring genes Neighboring gene YJU2 splicing factor, pseudogene 1 Neighboring gene SPT3 homolog, SAGA and STAGA complex component Neighboring gene zinc ribbon domain containing 1 antisense Neighboring gene uncharacterized LOC120094793 Neighboring gene uncharacterized LOC103690503 Neighboring gene uncharacterized LOC120094636 Neighboring gene uncharacterized LOC108351894

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription factor activity TAS
Traceable Author Statement
more info
PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables DNA-binding transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables bHLH transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
enables bHLH transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables chromatin DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
 
enables cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables general transcription initiation factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables histone deacetylase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables phosphatase activator activity ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein domain specific binding IEA
Inferred from Electronic Annotation
more info
 
enables protein domain specific binding ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific double-stranded DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription regulator activator activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in BMP signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in BMP signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in SMAD protein signal transduction IEA
Inferred from Electronic Annotation
more info
 
involved_in SMAD protein signal transduction ISO
Inferred from Sequence Orthology
more info
 
involved_in T cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within T cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in cell maturation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell maturation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to BMP stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to fibroblast growth factor stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to zinc ion starvation IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in chondrocyte development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within chondrocyte development ISO
Inferred from Sequence Orthology
more info
 
involved_in chondrocyte differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of chondrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within chondrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in embryonic cranial skeleton morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within embryonic cranial skeleton morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in embryonic forelimb morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within embryonic forelimb morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in endochondral ossification IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within endochondral ossification ISO
Inferred from Sequence Orthology
more info
 
involved_in epithelial cell proliferation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of epithelial cell proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in gene expression IEA
Inferred from Electronic Annotation
more info
 
involved_in gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in hemopoiesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in ligamentous ossification IEA
Inferred from Electronic Annotation
more info
 
involved_in ligamentous ossification ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of smoothened signaling pathway IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of smoothened signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in odontogenesis of dentin-containing tooth IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within odontogenesis of dentin-containing tooth ISO
Inferred from Sequence Orthology
more info
 
involved_in ossification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in osteoblast development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within osteoblast development ISO
Inferred from Sequence Orthology
more info
 
involved_in osteoblast differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within osteoblast differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in osteoblast differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in osteoblast fate commitment IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within osteoblast fate commitment ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of chondrocyte differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of chondrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of developmental process IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of epithelial cell proliferation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of epithelial cell proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of multicellular organismal process IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of ossification IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of osteoblast differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of osteoblast differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of osteoblast differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of osteoblast differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of stem cell proliferation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of stem cell proliferation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive 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
 
involved_in positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of fibroblast growth factor receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of fibroblast growth factor receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of odontogenesis of dentin-containing tooth IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of odontogenesis of dentin-containing tooth ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of ossification IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of ossification ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of osteoblast differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of osteoblast differentiation TAS
Traceable Author Statement
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in response to L-ascorbic acid IEA
Inferred from Electronic Annotation
more info
 
involved_in response to L-ascorbic acid ISO
Inferred from Sequence Orthology
more info
 
involved_in response to insulin IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to organic cyclic compound IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to sodium phosphate IEA
Inferred from Electronic Annotation
more info
 
involved_in response to sodium phosphate ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within skeletal system development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within skeletal system morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in smoothened signaling pathway IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of smoothened signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in stem cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within stem cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in stem cell proliferation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of stem cell proliferation ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in chromatin IEA
Inferred from Electronic Annotation
more info
 
located_in chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of transcription regulator complex IEA
Inferred from Electronic Annotation
more info
 
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
runt-related transcription factor 2
Names
core-binding factor subunit alpha-1
osteoblast-specific transcription factor 2

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001278483.1NP_001265412.1  runt-related transcription factor 2 isoform 1

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    JACYVU010000213
    UniProtKB/TrEMBL
    F1M9C5
    Conserved Domains (2) summary
    pfam00853
    Location:117238
    Runt; Runt domain
    pfam08504
    Location:438529
    RunxI; Runx inhibition domain
  2. NM_001278484.2NP_001265413.1  runt-related transcription factor 2 isoform 2

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    JACYVU010000213
    Related
    ENSRNOP00000077713.1, ENSRNOT00000098417.1
    Conserved Domains (3) summary
    pfam05109
    Location:260475
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam00853
    Location:96224
    Runt; Runt domain
    pfam08504
    Location:424515
    RunxI; Runx inhibition domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051344.1 Reference mRatBN7.2 Primary Assembly

    Range
    16167504..16492826
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039083955.1XP_038939883.1  runt-related transcription factor 2 isoform X3

    Conserved Domains (2) summary
    PHA03247
    Location:294581
    PHA03247; large tegument protein UL36; Provisional
    pfam00853
    Location:192318
    Runt; Runt domain
  2. XM_039083956.1XP_038939884.1  runt-related transcription factor 2 isoform X4

    Conserved Domains (2) summary
    PHA03247
    Location:283570
    PHA03247; large tegument protein UL36; Provisional
    pfam00853
    Location:181307
    Runt; Runt domain
  3. XM_006244550.4XP_006244612.1  runt-related transcription factor 2 isoform X6

    UniProtKB/TrEMBL
    F1M9C5
    Related
    ENSRNOP00000057733.4, ENSRNOT00000061014.5
    Conserved Domains (2) summary
    pfam00853
    Location:196317
    Runt; Runt domain
    pfam08504
    Location:517608
    RunxI; Runx inhibition domain
  4. XM_039083954.1XP_038939882.1  runt-related transcription factor 2 isoform X1

    Related
    ENSRNOP00000079713.1, ENSRNOT00000104855.1
    Conserved Domains (2) summary
    PHA03247
    Location:319606
    PHA03247; large tegument protein UL36; Provisional
    pfam00853
    Location:217343
    Runt; Runt domain
  5. XM_039083957.1XP_038939885.1  runt-related transcription factor 2 isoform X7

    Conserved Domains (2) summary
    PHA03247
    Location:339548
    PHA03247; large tegument protein UL36; Provisional
    pfam00853
    Location:217343
    Runt; Runt domain
  6. XM_017596549.2XP_017452038.1  runt-related transcription factor 2 isoform X9

  7. XM_017596548.2XP_017452037.1  runt-related transcription factor 2 isoform X8

  8. XM_017596547.2XP_017452036.1  runt-related transcription factor 2 isoform X5

    Related
    ENSRNOP00000097985.1, ENSRNOT00000116490.1
  9. XM_006244549.4XP_006244611.1  runt-related transcription factor 2 isoform X2

    See identical proteins and their annotated locations for XP_006244611.1

    Conserved Domains (2) summary
    pfam00853
    Location:221342
    Runt; Runt domain
    pfam08504
    Location:542633
    RunxI; Runx inhibition domain
  10. XM_017596551.2XP_017452040.1  runt-related transcription factor 2 isoform X10

  11. XM_006244554.4XP_006244616.1  runt-related transcription factor 2 isoform X11

    Conserved Domains (2) summary
    pfam00853
    Location:103223
    Runt; Runt domain
    pfam08504
    Location:366457
    RunxI; Runx inhibition domain
  12. XM_017596552.2XP_017452041.1  runt-related transcription factor 2 isoform X12

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_053470.2: Suppressed sequence

    Description
    NM_053470.2: This RefSeq was temporarily suppressed because currently there is not sufficient data to support this transcript.