Runx1 (RUNX family transcription factor 1) - Rat Genome Database
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Gene: Runx1 (RUNX family transcription factor 1) Rattus norvegicus
Analyze
Symbol: Runx1
Name: RUNX family transcription factor 1
RGD ID: 2283
Description: Exhibits promoter-specific chromatin binding activity and sequence-specific double-stranded DNA binding activity. Involved in several processes, including ovulation; positive regulation of progesterone secretion; and response to denervation involved in regulation of muscle adaptation. Localizes to nucleus. Used to study middle cerebral artery infarction. Biomarker of endometriosis. Human ortholog(s) of this gene implicated in acute myeloid leukemia. Orthologous to human RUNX1 (RUNX family transcription factor 1); PARTICIPATES IN transforming growth factor-beta Smad dependent signaling pathway; acute myeloid leukemia pathway; chronic myeloid leukemia pathway; INTERACTS WITH (+)-schisandrin B; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: acute myeloid leukemia 1; Aml1; B; CBF-alpha-2; Cbfa2; core-binding factor runt domain alpha subunit 2 (acute myeloid leukemia 1 oncogene); core-binding factor subunit alpha-2; oncogene AML-1; PEA2-alpha; PEA2-alpha B; PEBP2-alpha; PEBP2-alpha B; polyomavirus enhancer-binding protein 2 alpha B subunit; runt related transcription factor 1; runt-related transcription factor 1
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01132,765,147 - 33,003,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1132,769,165 - 33,003,021 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01136,367,315 - 36,601,674 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41132,623,461 - 32,725,404 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11132,679,703 - 32,781,647 (-)NCBI
Celera1131,494,069 - 31,582,728 (-)NCBICelera
Cytogenetic Map11q11NCBI
RH 3.4 Map11214.7RGD
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-cotinine  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
4,4'-sulfonyldiphenol  (ISO)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
asbestos  (ISO)
atrazine  (EXP)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
beryllium sulfate  (ISO)
bifenthrin  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chloroacetaldehyde  (ISO)
chlorpromazine  (EXP)
choline  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (EXP,ISO)
clodronic acid  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP)
colforsin daropate hydrochloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (EXP)
DDE  (ISO)
dexamethasone  (EXP)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
etoposide  (ISO)
folic acid  (ISO)
hydroxyurea  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lead nitrate  (ISO)
leflunomide  (ISO)
malathion  (ISO)
medroxyprogesterone acetate  (ISO)
metformin  (EXP)
methapyrilene  (ISO)
ochratoxin A  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
permethrin  (ISO)
quercetin  (EXP)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
tamibarotene  (ISO)
tamoxifen  (ISO)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloromethane  (EXP)
topotecan  (EXP)
trichloroethene  (ISO)
troglitazone  (EXP,ISO)
tungsten  (ISO)
Tungsten carbide  (ISO)
undecane  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
warfarin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
behavioral response to pain  (ISO)
cellular response to transforming growth factor beta stimulus  (ISO)
central nervous system development  (ISO)
chondrocyte differentiation  (IBA)
definitive hemopoiesis  (ISO)
embryonic hemopoiesis  (ISO)
hair follicle morphogenesis  (ISO)
hemopoiesis  (IBA,IEA,ISO)
in utero embryonic development  (ISO)
liver development  (ISO)
myeloid cell differentiation  (ISO)
myeloid progenitor cell differentiation  (ISO)
negative regulation of CD4-positive, alpha-beta T cell differentiation  (ISO,ISS)
negative regulation of cell population proliferation  (ISO)
negative regulation of granulocyte differentiation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO,ISS)
negative regulation of transcription, DNA-templated  (ISO)
neuron development  (ISO)
neuron differentiation  (IBA,ISO)
neuron fate commitment  (ISO)
ossification  (IBA)
ovulation  (IEP)
positive regulation of angiogenesis  (ISO,ISS)
positive regulation of CD8-positive, alpha-beta T cell differentiation  (ISO,ISS)
positive regulation of cell maturation  (ISO)
positive regulation of granulocyte differentiation  (IEA,ISO,ISS)
positive regulation of interferon-gamma production  (ISO)
positive regulation of interleukin-2 production  (IEA,ISO)
positive regulation of progesterone secretion  (IMP)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of transcription, DNA-templated  (IMP,ISO,ISS)
regulation of cell differentiation  (IBA)
regulation of hair follicle cell proliferation  (ISO)
regulation of signal transduction  (ISO)
regulation of T cell anergy  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
regulation of transcription, DNA-templated  (ISO)
response to denervation involved in regulation of muscle adaptation  (IEP)
response to retinoic acid  (ISO)
skeletal system development  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Agca C, etal., Mol Reprod Dev. 2013 Feb;80(2):102-17. doi: 10.1002/mrd.22141.
2. Bertrand-Philippe M, etal., J Biol Chem 2004 Jun 4;279(23):24530-9. Epub 2004 Mar 29.
3. Buga AM, etal., Front Aging Neurosci. 2014 Mar 18;6:44. doi: 10.3389/fnagi.2014.00044. eCollection 2014.
4. Chen CY, etal., Br J Haematol. 2007 Nov;139(3):405-14.
5. Cho EK, etal., Korean J Intern Med. 2003 Mar;18(1):13-20.
6. Choi SJ, etal., Blood. 2003 May 15;101(10):3778-83. Epub 2003 Jan 30.
7. Ford AM, etal., Proc Natl Acad Sci U S A. 1998 Apr 14;95(8):4584-8.
8. Gattenlohner S, etal., Am J Pathol 2003 Sep;163(3):1081-90.
9. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. GOA data from the GO Consortium
11. Gonzalez de Aguilar JL, etal., Physiol Genomics. 2008 Jan 17;32(2):207-18. Epub 2007 Nov 13.
12. Grossmann V, etal., Haematologica. 2011 Dec;96(12):1874-7. doi: 10.3324/haematol.2011.043919. Epub 2011 Aug 9.
13. Growney JD, etal., Blood. 2005 Jul 15;106(2):494-504. Epub 2005 Mar 22.
14. Haley KJ, etal., Am J Physiol Lung Cell Mol Physiol. 2011 Nov;301(5):L693-701. Epub 2011 Jul 29.
15. Jo M and Curry TE Jr, Mol Endocrinol. 2006 Sep;20(9):2156-72. Epub 2006 May 4.
16. Jung J, etal., BMC Proc. 2009 Dec 15;3 Suppl 7:S76.
17. Komlosi K, etal., Clin Exp Rheumatol. 2008 Jan-Feb;26(1):61-6.
18. Konno R, etal., Am J Reprod Immunol. 2007 Oct;58(4):330-43.
19. Kundu M, etal., Blood. 2005 Nov 15;106(10):3621-4. Epub 2005 Jul 28.
20. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
21. Liu J, etal., Endocrinology. 2009 Jul;150(7):3291-300. doi: 10.1210/en.2008-1527. Epub 2009 Apr 2.
22. Ma W, etal., Birth Defects Res A Clin Mol Teratol. 2015 Sep;103(9):772-9. doi: 10.1002/bdra.23401. Epub 2015 Jul 14.
23. Massagué J, etal., Genes Dev. 2005 Dec 1;19(23):2783-810.
24. MGD data from the GO Consortium
25. NCBI rat LocusLink and RefSeq merged data July 26, 2002
26. OMIM Disease Annotation Pipeline
27. Orozco G, etal., J Rheumatol. 2006 Jul;33(7):1235-9.
28. Patel A, etal., Neurosci Lett. 2011 Jan 7;487(2):144-8. Epub 2010 Oct 12.
29. Pipeline to import KEGG annotations from KEGG into RGD
30. Preudhomme C, etal., Blood. 2000 Oct 15;96(8):2862-9.
31. Reichard KK, etal., Mod Pathol. 2011 Dec;24(12):1606-11. doi: 10.1038/modpathol.2011.118. Epub 2011 Aug 5.
32. RGD automated data pipeline
33. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
34. RGD automated import pipeline for gene-chemical interactions
35. RGD comprehensive gene curation
36. Ross S and Hill CS, Int J Biochem Cell Biol. 2008;40(3):383-408. Epub 2007 Oct 7.
37. Roulston D, etal., Blood. 1998 Oct 15;92(8):2879-85.
38. Setoguchi R, etal., Science. 2008 Feb 8;319(5864):822-5. doi: 10.1126/science.1151844.
39. Shintaku Y, etal., Cells Tissues Organs. 2011;194(1):38-48. doi: 10.1159/000322557. Epub 2011 Jan 22.
40. Takata Y, etal., J Hum Genet. 2008;53(2):163-73. Epub 2007 Dec 18.
41. Tang JL, etal., Blood. 2009 Dec 17;114(26):5352-61. doi: 10.1182/blood-2009-05-223784. Epub 2009 Oct 6.
42. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
43. Wang T, etal., PLoS One. 2011;6(12):e28908. Epub 2011 Dec 21.
44. Wong WF, etal., J Immunol. 2012 May 2.
45. Wotton S, etal., Cancer Res. 2002 Dec 15;62(24):7181-5.
46. Yanagida M, etal., Oncogene. 2005 Jun 30;24(28):4477-85.
47. Yang LJ, etal., Chin Med J (Engl). 2009 Feb 5;122(3):331-7.
48. Zhu X, etal., Mol Cell Biol 1994 Dec;14(12):8051-7.
Additional References at PubMed
PMID:7774816   PMID:7862156   PMID:8413232   PMID:9199349   PMID:10207087   PMID:10207104   PMID:10856244   PMID:10943840   PMID:11742995   PMID:12217689   PMID:12551949   PMID:12807883  
PMID:14970218   PMID:15240886   PMID:15389629   PMID:16174759   PMID:16446141   PMID:17011173   PMID:17377532   PMID:18439490   PMID:19090621   PMID:19182774   PMID:20972335   PMID:21151104  
PMID:21464233   PMID:21678417   PMID:21873977   PMID:22082260   PMID:23018770   PMID:23861879   PMID:24582971   PMID:25834056  


Genomics

Comparative Map Data
Runx1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01132,765,147 - 33,003,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1132,769,165 - 33,003,021 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01136,367,315 - 36,601,674 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41132,623,461 - 32,725,404 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11132,679,703 - 32,781,647 (-)NCBI
Celera1131,494,069 - 31,582,728 (-)NCBICelera
Cytogenetic Map11q11NCBI
RH 3.4 Map11214.7RGD
RUNX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2134,787,801 - 36,004,667 (-)EnsemblGRCh38hg38GRCh38
GRCh382134,787,801 - 35,049,334 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372136,160,098 - 36,421,595 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map21q22.12NCBI
HuRef2121,639,088 - 21,900,490 (-)NCBIHuRef
CHM1_12135,722,384 - 35,983,819 (-)NCBICHM1_1
Runx1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391692,398,354 - 92,622,962 (-)NCBIGRCm39mm39
GRCm381692,601,466 - 92,826,074 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1692,601,466 - 92,826,149 (-)EnsemblGRCm38mm10GRCm38
MGSCv371692,601,711 - 92,826,311 (-)NCBIGRCm37mm9NCBIm37
MGSCv361692,492,963 - 92,586,187 (-)NCBImm8
Celera1693,683,427 - 93,779,296 (-)NCBICelera
Cytogenetic Map16C4NCBI
cM Map1653.7NCBI
RUNX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3130,170,605 - 30,420,839 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13130,170,859 - 30,420,344 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
RUNX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13198,371,835 - 198,638,189 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113198,371,835 - 198,635,648 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213208,205,560 - 208,304,379 (-)NCBISscrofa10.2Sscrofa10.2susScr3

Position Markers
D26532  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01132,769,170 - 32,769,349NCBIRnor6.0
Rnor_5.01136,371,338 - 36,371,517UniSTSRnor5.0
RGSC_v3.41132,623,466 - 32,623,645UniSTSRGSC3.4
Celera1131,494,204 - 31,494,383UniSTS
Cytogenetic Map11q11UniSTS
RH94454  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01132,769,166 - 32,769,354NCBIRnor6.0
Rnor_5.01136,371,334 - 36,371,522UniSTSRnor5.0
RGSC_v3.41132,623,462 - 32,623,650UniSTSRGSC3.4
Celera1131,494,200 - 31,494,388UniSTS
Cytogenetic Map11q11UniSTS
RH 3.4 Map11214.7UniSTS
AI462102  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01132,859,334 - 32,859,431NCBIRnor6.0
Rnor_5.01136,461,473 - 36,461,570UniSTSRnor5.0
RGSC_v3.41132,725,914 - 32,726,011UniSTSRGSC3.4
Celera1131,583,238 - 31,583,335UniSTS
Cytogenetic Map11q11UniSTS
AW532993  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01132,823,272 - 32,823,450NCBIRnor6.0
Rnor_5.01136,425,577 - 36,425,755UniSTSRnor5.0
RGSC_v3.41132,688,701 - 32,688,879UniSTSRGSC3.4
Celera1131,547,295 - 31,547,473UniSTS
Cytogenetic Map11q11UniSTS
RH 3.4 Map11205.5UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11133867429Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11172720192Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)1132503169342559Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11935127454351274Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111136730644444347Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111632197346583360Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)111947517979734728Rat
1598811Bp291Blood pressure QTL 2911.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)112194422966944229Rat
1598841Memor7Memory QTL 7exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)112194422966944229Rat
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)112204314944444112Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112540112970401129Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112572003870720038Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112572003870720038Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112831466586994795Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)113043533963186373Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)113043533986714631Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113215552082443118Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:30
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000002313
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 (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


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
High
Medium 8 14 5 6
Low 3 31 37 29 5 29 8 11 39 35 27 5 8
Below cutoff 12 12 12 12 35 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002313   ⟹   ENSRNOP00000002313
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1132,769,165 - 32,858,830 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084134   ⟹   ENSRNOP00000070750
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1132,769,219 - 33,003,021 (-)Ensembl
RefSeq Acc Id: NM_017325   ⟹   NP_059021
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01132,769,035 - 32,858,825 (-)NCBI
Rnor_5.01136,367,315 - 36,601,674 (-)NCBI
RGSC_v3.41132,623,461 - 32,725,404 (-)RGD
Celera1131,494,069 - 31,582,728 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008768598   ⟹   XP_008766820
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01132,765,147 - 33,003,061 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008768599   ⟹   XP_008766821
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01132,765,147 - 33,003,061 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598053   ⟹   XP_017453542
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01132,765,147 - 33,003,061 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_059021   ⟸   NM_017325
- UniProtKB: Q63046 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008766821   ⟸   XM_008768599
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008766820   ⟸   XM_008768598
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017453542   ⟸   XM_017598053
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JYQ4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002313   ⟸   ENSRNOT00000002313
RefSeq Acc Id: ENSRNOP00000070750   ⟸   ENSRNOT00000084134
Protein Domains
Runt

Transcriptome

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

Promoters
RGD ID:13698070
Promoter ID:EPDNEW_R8594
Type:single initiation site
Name:Runx1_2
Description:runt-related transcription factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R8595  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01132,858,782 - 32,858,842EPDNEW
RGD ID:13698075
Promoter ID:EPDNEW_R8595
Type:multiple initiation site
Name:Runx1_1
Description:runt-related transcription factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R8594  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01133,003,012 - 33,003,072EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2283 AgrOrtholog
Ensembl Genes ENSRNOG00000001704 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002313 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000070750 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002313 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000084134 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.720 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  4.10.770.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AML1_Runt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  p53-like_TF_DNA-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  p53/RUNT-type_TF_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Runt_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Runx_central_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RunxI_C_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TF_Runt-rel_RUNX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:50662 UniProtKB/Swiss-Prot
NCBI Gene 50662 ENTREZGENE
PANTHER PTHR11950 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Runt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RunxI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB RUNX1 RGD
PhenoGen Runx1 PhenoGen
PIRSF TF_Runt-rel_RUNX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS ONCOGENEAML1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE RUNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49417 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC220056
UniGene Rn.11201 ENTREZGENE
UniProt A0A0G2JYQ4 ENTREZGENE, UniProtKB/TrEMBL
  Q63046 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-05 Runx1  RUNX family transcription factor 1  Runx1  runt-related transcription factor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-17 Runx1  runt-related transcription factor 1  Runx1  runt related transcription factor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2001-06-26 Cbfa2  Core-binding factor, runt domain, alpha subunit 2 (acute myeloid leukemia 1 oncogene)      Symbol and Name withdrawn 67952 WITHDRAWN
2001-06-26 Runx1  Runt related transcription factor 1      Symbol and Name updated to reflect Human and Mouse nomenclature 67952 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease human homolog is responsible for a form of acute myeloid leukemia 634721
gene_function human homolog is a DNA binding protein 634721
gene_process involved in skeletal muscle gene regulation 634721