Ebf1 (EBF transcription factor 1) - Rat Genome Database

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Gene: Ebf1 (EBF transcription factor 1) Rattus norvegicus
Analyze
Symbol: Ebf1
Name: EBF transcription factor 1
RGD ID: 620953
Description: Enables C2H2 zinc finger domain binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within positive regulation of DNA-templated transcription. Predicted to be located in nucleus. Orthologous to human EBF1 (EBF transcription factor 1); PARTICIPATES IN DNA modification pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: early B-cell factor (olfactory neuronal transcription factor 1); early B-cell factor 1; Ebf; o/E-1; OE-1; olf-1; Olf1; olfactory neuronal transcription factor; transcription factor COE1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81029,597,221 - 29,990,571 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1029,601,351 - 29,988,702 (+)EnsemblGRCr8
mRatBN7.21029,095,858 - 29,489,142 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1029,099,933 - 29,487,665 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1033,844,602 - 34,231,502 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0102,383,005 - 2,769,924 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01028,815,202 - 29,202,068 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01023,654,849 - 24,051,627 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1023,661,013 - 24,050,209 (+)Ensemblrn6Rnor6.0
Rnor_5.01023,518,314 - 23,912,932 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41029,770,047 - 30,163,200 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1028,580,160 - 28,966,044 (+)NCBICelera
RGSC_v3.11030,132,189 - 30,164,249 (+)NCBI
Cytogenetic Map10q21NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,4'-trichlorobiphenyl  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-butoxyethanol  (ISO)
2-palmitoylglycerol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
arotinoid acid  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP,ISO)
benzene  (ISO)
benzo[a]pyrene  (EXP,ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (EXP,ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
CHIR 99021  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) chloride  (ISO)
cortisol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
decabromodiphenyl ether  (EXP)
deguelin  (ISO)
dexamethasone  (ISO)
dioxygen  (EXP)
disodium selenite  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
exemestane  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
indometacin  (ISO)
inulin  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
lithium chloride  (ISO)
melphalan  (ISO)
mercury dibromide  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel atom  (ISO)
niclosamide  (ISO)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (EXP)
PCB138  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
pirinixic acid  (EXP,ISO)
Ptaquiloside  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
testosterone  (EXP)
thapsigargin  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vorinostat  (ISO)
XAV939  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Identification of DNA recognition sequences and protein interaction domains of the multiple-Zn-finger protein Roaz. Tsai RY and Reed RR, Mol Cell Biol 1998 Nov;18(11):6447-56.
9. Molecular cloning of the olfactory neuronal transcription factor Olf-1 by genetic selection in yeast. Wang MM and Reed RR, Nature 1993 Jul 8;364(6433):121-6.
Additional References at PubMed
PMID:9151733   PMID:12139918   PMID:12446773   PMID:14594818   PMID:22194471  


Genomics

Comparative Map Data
Ebf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81029,597,221 - 29,990,571 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1029,601,351 - 29,988,702 (+)EnsemblGRCr8
mRatBN7.21029,095,858 - 29,489,142 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1029,099,933 - 29,487,665 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1033,844,602 - 34,231,502 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0102,383,005 - 2,769,924 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01028,815,202 - 29,202,068 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01023,654,849 - 24,051,627 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1023,661,013 - 24,050,209 (+)Ensemblrn6Rnor6.0
Rnor_5.01023,518,314 - 23,912,932 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41029,770,047 - 30,163,200 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1028,580,160 - 28,966,044 (+)NCBICelera
RGSC_v3.11030,132,189 - 30,164,249 (+)NCBI
Cytogenetic Map10q21NCBI
EBF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385158,695,920 - 159,099,916 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5158,695,920 - 159,099,951 (-)Ensemblhg38GRCh38
GRCh375158,122,928 - 158,526,924 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365158,058,006 - 158,459,347 (-)NCBIBuild 36Build 36hg18NCBI36
Build 345158,058,006 - 158,459,347NCBI
Celera5154,157,410 - 154,557,967 (-)NCBICelera
Cytogenetic Map5q33.3NCBI
HuRef5153,220,108 - 153,621,641 (-)NCBIHuRef
CHM1_15157,555,693 - 157,959,313 (-)NCBICHM1_1
T2T-CHM13v2.05159,224,860 - 159,628,711 (-)NCBIT2T-CHM13v2.0
Ebf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391144,502,738 - 44,898,923 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1144,508,144 - 44,898,918 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381144,618,100 - 45,008,096 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1144,617,317 - 45,008,091 (+)Ensemblmm10GRCm38
MGSCv371144,431,636 - 44,818,677 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361144,461,557 - 44,848,598 (+)NCBIMGSCv36mm8
Celera1149,253,154 - 49,636,053 (+)NCBICelera
Cytogenetic Map11B1.1NCBI
cM Map1126.45NCBI
Ebf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540812,739,083 - 13,121,699 (-)Ensembl
ChiLan1.0NW_00495540812,735,893 - 13,121,700 (-)NCBIChiLan1.0ChiLan1.0
EBF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24153,885,684 - 154,287,276 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15152,025,231 - 152,427,651 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05154,091,337 - 154,492,474 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15160,708,235 - 161,108,634 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5160,708,235 - 161,108,568 (-)EnsemblpanPan2panpan1.1
EBF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1451,378,314 - 51,765,768 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl451,379,233 - 51,763,035 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha451,265,503 - 51,657,405 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0451,807,031 - 52,199,508 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl451,807,074 - 52,197,970 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1451,636,811 - 52,028,674 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0451,742,320 - 52,134,292 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0452,259,568 - 52,651,762 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ebf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213105,817,069 - 106,194,351 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365154,503,941 - 4,632,564 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365154,266,419 - 4,643,702 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EBF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1664,359,001 - 64,752,210 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11664,357,999 - 64,753,188 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21670,161,409 - 70,559,535 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EBF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12361,097,268 - 61,502,784 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2361,109,331 - 61,243,631 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603416,121,138 - 16,527,144 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ebf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473330,333,504 - 30,733,267 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473330,327,541 - 30,735,432 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ebf1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1927,435,767 - 27,822,514 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ebf1
2450 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:95
Count of miRNA genes:88
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000047970
Prediction methods:Microtar, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101577675460776754Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102702353598502431Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)102744378772443787Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)101993920764939207Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)101803578263035782Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101866841963668419Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102183375861843633Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102895035373950353Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102980091064653589Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102744378772443787Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101499153586964295Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102293137391127454Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)101465354159653541Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101553301273695498Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102466212373695339Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102702353561843633Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)102980091091417879Rat
2298495Eae23Experimental allergic encephalomyelitis QTL 2316.93nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)101617552561175525Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)102011061465110614Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum immunoglobulin E level (CMO:0002101)102342212132490778Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)102758722696099902Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102907697874076978Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101803578263035782Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)102744378772443787Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102937704652699134Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)102011061465110614Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102702353599451848Rat

Markers in Region
D10Mgh11  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81029,800,910 - 29,801,044 (+)Marker Load Pipeline
mRatBN7.21029,299,504 - 29,299,638 (+)MAPPERmRatBN7.2
Rnor_6.01023,861,015 - 23,861,148NCBIRnor6.0
Rnor_5.01023,722,820 - 23,722,953UniSTSRnor5.0
RGSC_v3.41029,974,190 - 29,974,324RGDRGSC3.4
RGSC_v3.41029,974,191 - 29,974,324UniSTSRGSC3.4
Celera1028,778,788 - 28,778,925UniSTS
RGSC_v3.11029,975,240 - 29,975,373RGD
RH 3.4 Map10315.9UniSTS
RH 3.4 Map10315.9RGD
RH 2.0 Map10337.6RGD
Cytogenetic Map10q21UniSTS
D10Rat253  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81029,810,972 - 29,811,101 (+)Marker Load Pipeline
mRatBN7.21029,309,567 - 29,309,696 (+)MAPPERmRatBN7.2
Rnor_6.01023,870,994 - 23,871,122NCBIRnor6.0
Rnor_5.01023,732,805 - 23,732,933UniSTSRnor5.0
RGSC_v3.41029,984,213 - 29,984,342RGDRGSC3.4
RGSC_v3.41029,984,214 - 29,984,342UniSTSRGSC3.4
Celera1028,788,748 - 28,788,876UniSTS
RGSC_v3.11029,985,262 - 29,985,391RGD
SHRSP x BN Map1032.8899UniSTS
SHRSP x BN Map1032.8899RGD
Cytogenetic Map10q21UniSTS
D10Mco53  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81029,626,363 - 29,627,268 (+)Marker Load Pipeline
mRatBN7.21029,124,996 - 29,125,903 (+)MAPPERmRatBN7.2
Rnor_6.01023,685,456 - 23,686,360NCBIRnor6.0
Rnor_5.01023,548,115 - 23,549,019UniSTSRnor5.0
RGSC_v3.41029,794,232 - 29,795,136UniSTSRGSC3.4
Celera1028,604,621 - 28,605,525UniSTS
Cytogenetic Map10q21UniSTS
D5S412  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21029,408,357 - 29,408,520 (+)MAPPERmRatBN7.2
Rnor_6.01023,970,692 - 23,970,854NCBIRnor6.0
Rnor_5.01023,831,787 - 23,831,949UniSTSRnor5.0
RGSC_v3.41030,083,708 - 30,083,870UniSTSRGSC3.4
Celera1028,887,388 - 28,887,550UniSTS
Cytogenetic Map10q21UniSTS
D11Mit175  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21029,102,109 - 29,102,215 (+)MAPPERmRatBN7.2
Rnor_6.01023,662,568 - 23,662,673NCBIRnor6.0
Rnor_5.01023,525,227 - 23,525,332UniSTSRnor5.0
RGSC_v3.41029,771,344 - 29,771,449UniSTSRGSC3.4
Celera1028,581,715 - 28,581,820UniSTS
Cytogenetic Map10q21UniSTS
RH133481  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21029,210,663 - 29,210,872 (+)MAPPERmRatBN7.2
Rnor_6.01023,771,681 - 23,771,889NCBIRnor6.0
Rnor_5.01023,633,416 - 23,633,624UniSTSRnor5.0
RGSC_v3.41029,880,870 - 29,881,078UniSTSRGSC3.4
Celera1028,690,153 - 28,690,361UniSTS
RH 3.4 Map10321.0UniSTS
Cytogenetic Map10q21UniSTS
BE107925  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21029,283,059 - 29,283,229 (+)MAPPERmRatBN7.2
Rnor_6.01023,844,573 - 23,844,742NCBIRnor6.0
Rnor_5.01023,706,105 - 23,706,274UniSTSRnor5.0
RGSC_v3.41029,957,749 - 29,957,918UniSTSRGSC3.4
Celera1028,762,354 - 28,762,523UniSTS
RH 3.4 Map10319.6UniSTS
Cytogenetic Map10q21UniSTS
BF407519  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21029,149,999 - 29,150,164 (+)MAPPERmRatBN7.2
Rnor_6.01023,710,732 - 23,710,896NCBIRnor6.0
Rnor_5.01023,573,391 - 23,573,555UniSTSRnor5.0
RGSC_v3.41029,819,234 - 29,819,398UniSTSRGSC3.4
Celera1028,629,586 - 28,629,750UniSTS
RH 3.4 Map10317.0UniSTS
Cytogenetic Map10q21UniSTS
D3S3187  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21029,458,388 - 29,459,370 (+)MAPPERmRatBN7.2
Rnor_6.01024,020,559 - 24,021,540NCBIRnor6.0
Rnor_5.01023,881,864 - 23,882,845UniSTSRnor5.0
RGSC_v3.41030,134,520 - 30,135,501UniSTSRGSC3.4
Celera1028,937,326 - 28,938,307UniSTS
Cytogenetic Map10q21UniSTS
D5S412  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21029,408,357 - 29,408,472 (+)MAPPERmRatBN7.2
Rnor_6.01023,970,692 - 23,970,806NCBIRnor6.0
Rnor_5.01023,831,787 - 23,831,901UniSTSRnor5.0
RGSC_v3.41030,083,708 - 30,083,822UniSTSRGSC3.4
Celera1028,887,388 - 28,887,502UniSTS
Cytogenetic Map10q21UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 13 83 198 89 88 57 139 57 6 450 263 20 178 106 115 31 28 28

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053820 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085048 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085049 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC115187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ175272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ177833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L24051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000047970   ⟹   ENSRNOP00000050344
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1023,661,343 - 23,687,606 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000071435   ⟹   ENSRNOP00000067433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1029,601,351 - 29,988,702 (+)Ensembl
mRatBN7.2 Ensembl1029,100,022 - 29,487,665 (+)Ensembl
Rnor_6.0 Ensembl1023,914,894 - 24,049,832 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000076664   ⟹   ENSRNOP00000068319
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1029,604,058 - 29,988,702 (+)Ensembl
mRatBN7.2 Ensembl1029,099,933 - 29,487,665 (+)Ensembl
Rnor_6.0 Ensembl1023,661,013 - 24,049,460 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000076674   ⟹   ENSRNOP00000068330
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1023,661,301 - 24,050,209 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000128797   ⟹   ENSRNOP00000105851
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1029,601,376 - 29,988,702 (+)Ensembl
RefSeq Acc Id: NM_053820   ⟹   NP_446272
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,601,921 - 29,989,106 (+)NCBI
mRatBN7.21029,100,555 - 29,487,697 (+)NCBI
Rnor_6.01023,661,013 - 24,049,864 (+)NCBI
Rnor_5.01023,518,314 - 23,912,932 (+)NCBI
RGSC_v3.41029,770,047 - 30,163,200 (+)RGD
Celera1028,580,160 - 28,966,044 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246117   ⟹   XP_006246179
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,601,322 - 29,990,571 (+)NCBI
mRatBN7.21029,099,897 - 29,489,142 (+)NCBI
Rnor_6.01023,659,431 - 24,051,627 (+)NCBI
Rnor_5.01023,518,314 - 23,912,932 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246118   ⟹   XP_006246180
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,601,323 - 29,990,571 (+)NCBI
mRatBN7.21029,099,900 - 29,489,142 (+)NCBI
Rnor_6.01023,659,432 - 24,051,627 (+)NCBI
Rnor_5.01023,518,314 - 23,912,932 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246120   ⟹   XP_006246182
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,597,221 - 29,990,571 (+)NCBI
mRatBN7.21029,095,858 - 29,489,142 (+)NCBI
Rnor_6.01023,654,849 - 24,051,627 (+)NCBI
Rnor_5.01023,518,314 - 23,912,932 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596958   ⟹   XP_017452447
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,601,322 - 29,990,571 (+)NCBI
mRatBN7.21029,099,896 - 29,489,142 (+)NCBI
Rnor_6.01023,659,431 - 24,051,627 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596960   ⟹   XP_017452449
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,603,179 - 29,990,571 (+)NCBI
mRatBN7.21029,101,467 - 29,489,142 (+)NCBI
Rnor_6.01023,661,990 - 24,051,627 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596962   ⟹   XP_017452451
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,605,195 - 29,990,571 (+)NCBI
mRatBN7.21029,103,861 - 29,489,142 (+)NCBI
Rnor_6.01023,664,303 - 24,051,627 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039085048   ⟹   XP_038940976
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,602,228 - 29,990,571 (+)NCBI
mRatBN7.21029,100,870 - 29,489,142 (+)NCBI
RefSeq Acc Id: XM_039085049   ⟹   XP_038940977
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,602,228 - 29,990,571 (+)NCBI
mRatBN7.21029,100,871 - 29,489,142 (+)NCBI
RefSeq Acc Id: XM_063268302   ⟹   XP_063124372
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,602,227 - 29,990,571 (+)NCBI
RefSeq Acc Id: XM_063268303   ⟹   XP_063124373
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81029,602,228 - 29,990,571 (+)NCBI
RefSeq Acc Id: NP_446272   ⟸   NM_053820
- UniProtKB: Q63398 (UniProtKB/Swiss-Prot),   A6HDP7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246182   ⟸   XM_006246120
- Peptide Label: isoform X8
- UniProtKB: A0A8I5ZU01 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246179   ⟸   XM_006246117
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QZ79 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246180   ⟸   XM_006246118
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017452447   ⟸   XM_017596958
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017452449   ⟸   XM_017596960
- Peptide Label: isoform X10
- UniProtKB: A0A8I5ZU01 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452451   ⟸   XM_017596962
- Peptide Label: isoform X9
- Sequence:
Ensembl Acc Id: ENSRNOP00000050344   ⟸   ENSRNOT00000047970
Ensembl Acc Id: ENSRNOP00000067433   ⟸   ENSRNOT00000071435
Ensembl Acc Id: ENSRNOP00000068330   ⟸   ENSRNOT00000076674
Ensembl Acc Id: ENSRNOP00000068319   ⟸   ENSRNOT00000076664
RefSeq Acc Id: XP_038940976   ⟸   XM_039085048
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZU01 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038940977   ⟸   XM_039085049
- Peptide Label: isoform X5
- UniProtKB: A0A8I5ZU01 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063124372   ⟸   XM_063268302
- Peptide Label: isoform X6
- UniProtKB: A0A8I5ZU01 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063124373   ⟸   XM_063268303
- Peptide Label: isoform X7
- UniProtKB: A0A8I5ZU01 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000105851   ⟸   ENSRNOT00000128797
Protein Domains
IPT/TIG

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63398-F1-model_v2 AlphaFold Q63398 1-584 view protein structure

Transcriptome

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

Promoters
RGD ID:13697115
Promoter ID:EPDNEW_R7629
Type:multiple initiation site
Name:Ebf1_1
Description:early B-cell factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01023,661,315 - 23,661,375EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620953 AgrOrtholog
BioCyc Gene G2FUF-25394 BioCyc
Ensembl Genes ENSRNOG00000028845 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000076664 ENTREZGENE
  ENSRNOT00000128797 ENTREZGENE
Gene3D-CATH 1.10.287.4280 UniProtKB/Swiss-Prot
  2.60.40.10 UniProtKB/Swiss-Prot
  2.60.40.3180 UniProtKB/Swiss-Prot
InterPro COE_DBD UniProtKB/Swiss-Prot
  COE_DBD_sf UniProtKB/Swiss-Prot
  COE_HLH UniProtKB/Swiss-Prot
  COE_IPT UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig_E-set UniProtKB/Swiss-Prot
  IPT_dom UniProtKB/Swiss-Prot
  Transcription_factor_COE UniProtKB/Swiss-Prot
  Transcription_factor_COE_CS UniProtKB/Swiss-Prot
KEGG Report rno:116543 UniProtKB/Swiss-Prot
NCBI Gene 116543 ENTREZGENE
PANTHER PTHR10747 UniProtKB/Swiss-Prot
Pfam COE1_DBD UniProtKB/Swiss-Prot
  COE1_HLH UniProtKB/Swiss-Prot
  TIG UniProtKB/Swiss-Prot
PhenoGen Ebf1 PhenoGen
PROSITE COE UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000028845 RatGTEx
SMART IPT UniProtKB/Swiss-Prot
Superfamily-SCOP SSF81296 UniProtKB/Swiss-Prot
UniProt A0A8I5ZU01 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QZ79 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LJF7_RAT UniProtKB/TrEMBL
  A6HDP7 ENTREZGENE, UniProtKB/TrEMBL
  COE1_RAT UniProtKB/Swiss-Prot
  M0RCU9_RAT UniProtKB/TrEMBL
  Q63398 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-10-03 Ebf1  EBF transcription factor 1  Ebf1  early B-cell factor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Ebf1  early B-cell factor 1  Ebf  early B-cell factor (olfactory neuronal transcription factor 1)  Symbol and Name updated 1299863 APPROVED
2002-08-07 Ebf  early B-cell factor (olfactory neuronal transcription factor 1)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains protein contains a helix-loop-helix motif 61626
gene_expression protein is expressed exclusively in olfactory receptor neurons/precursors 61626
gene_physical_interaction protein appears to function as a homodimer 61626