Runx3 (RUNX family transcription factor 3) - Rat Genome Database

Send us a Message

Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Runx3 (RUNX family transcription factor 3) Rattus norvegicus
Symbol: Runx3
Name: RUNX family transcription factor 3
RGD ID: 620082
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and transcription corepressor binding activity. Predicted to be involved in several processes, including chondrocyte differentiation; regulation of DNA-templated transcription; and regulation of alpha-beta T cell differentiation. Predicted to act upstream of or within several processes, including axon guidance; hair follicle morphogenesis; and positive regulation of extrinsic apoptotic signaling pathway. Predicted to be located in cytosol; nucleolus; and nucleoplasm. Predicted to be part of chromatin. Human ortholog(s) of this gene implicated in several diseases, including breast cancer (multiple); female reproductive organ cancer (multiple); lung non-small cell carcinoma; pancreatic cancer; and urinary bladder cancer. Orthologous to human RUNX3 (RUNX family transcription factor 3); PARTICIPATES IN transforming growth factor-beta Smad dependent signaling pathway; INTERACTS WITH 1-chloro-2,4-dinitrobenzene; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Runt related transcription factor 3; runt-related transcription factor 3
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
GRCr85152,644,270 - 152,702,835 (+)NCBIGRCr8
mRatBN7.25147,360,587 - 147,419,161 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5147,360,994 - 147,419,156 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5150,095,587 - 150,118,606 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05151,866,359 - 151,889,374 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05151,851,851 - 151,874,872 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05153,507,093 - 153,531,137 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5153,507,093 - 153,531,137 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05157,242,539 - 157,302,473 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45153,950,116 - 153,973,141 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15153,960,154 - 153,983,180 (+)NCBI
Celera5145,805,605 - 145,828,429 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1-chloro-2,4-dinitrobenzene  (EXP)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (EXP)
4-amino-2,6-dinitrotoluene  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphotericin B  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
Cuprizon  (EXP)
cyclophosphamide  (ISO)
D-glucose  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
etoposide  (ISO)
flavonoids  (EXP)
fonofos  (ISO)
FR900359  (ISO)
fructose  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP,ISO)
glucose  (ISO)
glycidol  (EXP)
glyphosate  (ISO)
lipopolysaccharide  (ISO)
methapyrilene  (ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
nitrofen  (EXP)
Octicizer  (ISO)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
parathion  (ISO)
perfluorooctanoic acid  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
terbufos  (ISO)
tributyl phosphate  (ISO)
trimellitic anhydride  (EXP)
triphenyl phosphate  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tris(2-chloroethyl) phosphate  (ISO)
valproic acid  (ISO)
vincristine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View

References - curated
# Reference Title Reference Citation
1. DNA copy-number loss on 1p36.1 harboring RUNX3 with promoter hypermethylation and associated loss of RUNX3 expression in liver fluke-associated intrahepatic cholangiocarcinoma. Dachrut S, etal., Asian Pac J Cancer Prev. 2009 Oct-Dec;10(4):575-82.
2. DNA methylation in tumor and matched normal tissues from non-small cell lung cancer patients. Feng Q, etal., Cancer Epidemiol Biomarkers Prev. 2008 Mar;17(3):645-54. doi: 10.1158/1055-9965.EPI-07-2518.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Epigenetic inactivation of RUNX3 in microsatellite unstable sporadic colon cancers. Goel A, etal., Int J Cancer. 2004 Dec 10;112(5):754-9.
6. RUNX3 and CAMK2N1 hypermethylation as prognostic marker for epithelial ovarian cancer. Häfner N, etal., Int J Cancer. 2016 Jan 1;138(1):217-28. doi: 10.1002/ijc.29690. Epub 2015 Jul 28.
7. RUNX3 promoter region is specifically methylated in poorly-differentiated colorectal cancer. Imamura Y, etal., Anticancer Res. 2005 Jul-Aug;25(4):2627-30.
8. Differential expressions of cancer-associated genes and their regulatory miRNAs in colorectal carcinoma. Kara M, etal., Gene. 2015 Aug 1;567(1):81-6. doi: 10.1016/j.gene.2015.04.065. Epub 2015 Apr 27.
9. CpG island hypermethylation and repetitive DNA hypomethylation in premalignant lesion of extrahepatic cholangiocarcinoma. Kim BH, etal., Virchows Arch. 2009 Oct;455(4):343-51. Epub 2009 Sep 10.
10. RUNX3 inactivation by point mutations and aberrant DNA methylation in bladder tumors. Kim WJ, etal., Cancer Res. 2005 Oct 15;65(20):9347-54.
11. RUNX3 is frequently inactivated by dual mechanisms of protein mislocalization and promoter hypermethylation in breast cancer. Lau QC, etal., Cancer Res. 2006 Jul 1;66(13):6512-20.
12. Mutation burden analysis of six common mental disorders in African Americans by whole genome sequencing. Liu Y, etal., Hum Mol Genet. 2022 Nov 10;31(22):3769-3776. doi: 10.1093/hmg/ddac129.
13. Smad transcription factors. Massagué J, etal., Genes Dev. 2005 Dec 1;19(23):2783-810.
14. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
15. Down-regulation of RUNX1, RUNX3 and CBFbeta in hepatocellular carcinomas in an early stage of hepatocarcinogenesis. Miyagawa K, etal., Anticancer Res. 2006 Sep-Oct;26(5B):3633-43.
16. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. RUNX3 protein is overexpressed in human epithelial ovarian cancer. Nevadunsky NS, etal., Gynecol Oncol. 2008 Oct 18.
18. Adverse prognosis of epigenetic inactivation in RUNX3 gene at 1p36 in human pancreatic cancer. Nomoto S, etal., Br J Cancer. 2008 May 20;98(10):1690-5. Epub 2008 May 13.
19. GOA pipeline RGD automated data pipeline
20. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
21. Comprehensive gene review and curation RGD comprehensive gene curation
22. How the Smads regulate transcription. Ross S and Hill CS, Int J Biochem Cell Biol. 2008;40(3):383-408. Epub 2007 Oct 7.
23. Frequent downregulation of the runt domain transcription factors RUNX1, RUNX3 and their cofactor CBFB in gastric cancer. Sakakura C, etal., Int J Cancer. 2005 Jan 10;113(2):221-8. doi: 10.1002/ijc.20551.
24. RUNX3 inactivation by frequent promoter hypermethylation and protein mislocalization constitute an early event in breast cancer progression. Subramaniam MM, etal., Breast Cancer Res Treat. 2009 Jan;113(1):113-21. Epub 2008 Feb 7.
25. Differential requirements for Runx proteins in CD4 repression and epigenetic silencing during T lymphocyte development. Taniuchi I, etal., Cell 2002 Nov 27;111(5):621-33.
26. Differential expression of RUNX genes in human esophageal squamous cell carcinoma: downregulation of RUNX3 worsens patient prognosis. Tonomoto Y, etal., Oncology. 2007;73(5-6):346-56. doi: 10.1159/000135350. Epub 2008 May 26.
27. Promoter hypermethylation of DAP-kinase is associated with poor survival in primary biliary tract carcinoma patients. Tozawa T, etal., Cancer Sci. 2004 Sep;95(9):736-40.
28. RUNX3 site-specific hypermethylation predicts papillary thyroid cancer recurrence. Wang D, etal., Am J Cancer Res. 2014 Nov 19;4(6):725-37. eCollection 2014.
29. Frequent inactivation of RUNX3 in endometrial carcinoma. Yoshizaki T, etal., Gynecol Oncol. 2008 Sep;110(3):439-44. Epub 2008 Jun 24.
Additional References at PubMed
PMID:11955451   PMID:12352981   PMID:12807883   PMID:15107406   PMID:15514019   PMID:15937937   PMID:17352693   PMID:18258917   PMID:19351720   PMID:20100835   PMID:20399120   PMID:20599712  
PMID:22916278   PMID:26104385   PMID:28949375   PMID:31298391   PMID:31603252   PMID:32681471   PMID:36690210  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
GRCr85152,644,270 - 152,702,835 (+)NCBIGRCr8
mRatBN7.25147,360,587 - 147,419,161 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5147,360,994 - 147,419,156 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5150,095,587 - 150,118,606 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05151,866,359 - 151,889,374 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05151,851,851 - 151,874,872 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05153,507,093 - 153,531,137 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5153,507,093 - 153,531,137 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05157,242,539 - 157,302,473 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45153,950,116 - 153,973,141 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15153,960,154 - 153,983,180 (+)NCBI
Celera5145,805,605 - 145,828,429 (+)NCBICelera
Cytogenetic Map5q36NCBI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
GRCh38124,899,511 - 24,965,138 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl124,899,511 - 24,965,121 (-)EnsemblGRCh38hg38GRCh38
GRCh37125,226,002 - 25,291,501 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36125,098,589 - 25,164,088 (-)NCBINCBI36Build 36hg18NCBI36
Build 34124,971,363 - 25,001,674NCBI
Celera123,550,687 - 23,616,186 (-)NCBICelera
Cytogenetic Map1p36.11NCBI
HuRef123,479,020 - 23,544,351 (-)NCBIHuRef
CHM1_1125,339,525 - 25,404,974 (-)NCBICHM1_1
T2T-CHM13v2.0124,735,232 - 24,800,883 (-)NCBIT2T-CHM13v2.0
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
GRCm394134,847,956 - 134,905,301 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4134,847,963 - 134,905,301 (+)EnsemblGRCm39 Ensembl
GRCm384135,120,645 - 135,177,990 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4135,120,652 - 135,177,990 (+)EnsemblGRCm38mm10GRCm38
MGSCv374134,676,560 - 134,733,905 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364134,392,721 - 134,450,066 (+)NCBIMGSCv36mm8
Celera4133,305,992 - 133,363,404 (+)NCBICelera
Cytogenetic Map4D3NCBI
cM Map467.19NCBI
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0 EnsemblNW_0049554524,579,331 - 4,636,884 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554524,580,444 - 4,606,820 (-)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
NHGRI_mPanPan1-v21202,004,726 - 202,035,340 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11201,105,459 - 201,136,002 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0124,097,321 - 24,164,065 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1125,073,135 - 25,137,343 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl125,073,134 - 25,137,335 (-)Ensemblpanpan1.1panPan2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
Dog10K_Boxer_Tasha271,373,354 - 71,433,764 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0275,360,920 - 75,421,325 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl275,360,779 - 75,419,803 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1272,183,832 - 72,244,178 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0273,190,446 - 73,250,861 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0274,194,962 - 74,255,367 (+)NCBIUU_Cfam_GSD_1.0
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_02440505843,927,164 - 43,978,170 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364749,751,946 - 9,802,910 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364749,751,946 - 9,802,910 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1 Ensembl682,531,559 - 82,595,026 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1682,531,203 - 82,595,044 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2676,296,635 - 76,336,622 (-)NCBISscrofa10.2Sscrofa10.2susScr3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
ChlSab1.120107,769,244 - 107,802,154 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20107,736,683 - 107,802,307 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660338,555,235 - 8,619,802 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
HetGla_female_1.0 EnsemblNW_0046247649,191,556 - 9,248,252 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247649,192,067 - 9,218,617 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Variants in Runx3
303 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:52
Interacting mature miRNAs:58
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5143799107158428037Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
Medium 2 5
Low 1 12 32 22 14 22 11 21 11
Below cutoff 22 23 18 18 5 8 39 24 17 5


RefSeq Acc Id: ENSRNOT00000083645   ⟹   ENSRNOP00000074332
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5147,360,994 - 147,419,156 (+)Ensembl
Rnor_6.0 Ensembl5153,507,093 - 153,531,137 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086650   ⟹   ENSRNOP00000075140
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5153,507,093 - 153,531,137 (+)Ensembl
RefSeq Acc Id: NM_001411778   ⟹   NP_001398707
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
GRCr85152,644,270 - 152,702,835 (+)NCBI
mRatBN7.25147,360,587 - 147,419,161 (+)NCBI
RefSeq Acc Id: NM_130425   ⟹   NP_569109
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
GRCr85152,677,646 - 152,702,835 (+)NCBI
mRatBN7.25147,393,964 - 147,419,161 (+)NCBI
Rnor_6.05153,507,093 - 153,531,137 (+)NCBI
Rnor_5.05157,242,539 - 157,302,473 (+)NCBI
RGSC_v3.45153,950,116 - 153,973,141 (+)RGD
Celera5145,805,605 - 145,828,429 (+)RGD
RefSeq Acc Id: XM_039109195   ⟹   XP_038965123
Rat AssemblyChrPosition (strand)Source
GRCr85152,677,608 - 152,702,835 (+)NCBI
mRatBN7.25147,393,926 - 147,419,161 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001398707 (Get FASTA)   NCBI Sequence Viewer  
  NP_569109 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965123 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAL16092 (Get FASTA)   NCBI Sequence Viewer  
  EDL80748 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074332
RefSeq Acc Id: NP_569109   ⟸   NM_130425
- Peptide Label: isoform 1
- UniProtKB: A0A0G2K7T0 (UniProtKB/TrEMBL),   Q91ZK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074332   ⟸   ENSRNOT00000083645
RefSeq Acc Id: ENSRNOP00000075140   ⟸   ENSRNOT00000086650
RefSeq Acc Id: XP_038965123   ⟸   XM_039109195
- Peptide Label: isoform X1
- UniProtKB: Q91ZK1 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001398707   ⟸   NM_001411778
- Peptide Label: isoform 2
- UniProtKB: Q91ZK1 (UniProtKB/TrEMBL)
Protein Domains


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13694166
Promoter ID:EPDNEW_R4674
Type:single initiation site
Description:runt-related transcription factor 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database,
Experiment Methods:Single-end sequencing.
Rat AssemblyChrPosition (strand)Source
Rnor_6.05153,506,993 - 153,507,053EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620082 AgrOrtholog
BioCyc Gene G2FUF-39550 BioCyc
Ensembl Genes ENSRNOG00000054217 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000083645 ENTREZGENE
  ENSRNOT00000083645.2 UniProtKB/TrEMBL
InterPro AML1/Runt_N UniProtKB/TrEMBL
  AML1_Runt UniProtKB/TrEMBL
  p53-like_TF_DNA-bd UniProtKB/TrEMBL
  p53/RUNT-type_TF_DNA-bd UniProtKB/TrEMBL
  RunxI UniProtKB/TrEMBL
  TF_Runt-rel_RUNX UniProtKB/TrEMBL
KEGG Report rno:156726 UniProtKB/TrEMBL
Pfam Runt UniProtKB/TrEMBL
  RunxI UniProtKB/TrEMBL
PhenoGen Runx3 PhenoGen
RatGTEx ENSRNOG00000054217 RatGTEx
Superfamily-SCOP P53_like_DNA_bnd UniProtKB/TrEMBL

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-05 Runx3  RUNX family transcription factor 3  Runx3  runt-related transcription factor 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Runx3  runt-related transcription factor 3    Runt related transcription factor 3  Name updated 1299863 APPROVED
2002-08-07 Runx3  Runt related transcription factor 3      Symbol and Name status set to provisional 70820 PROVISIONAL