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
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81029,597,221 - 29,990,571 (+)NCBIGRCr8
mRatBN7.21029,095,858 - 29,489,142 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1029,099,933 - 29,487,665 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1033,844,602 - 34,231,502 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0102,383,005 - 2,769,924 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01028,815,202 - 29,202,068 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01023,654,849 - 24,051,627 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1023,661,013 - 24,050,209 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01023,518,314 - 23,912,932 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41029,770,047 - 30,163,200 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11030,132,189 - 30,164,249 (+)NCBI
Celera1028,580,160 - 28,966,044 (+)NCBICelera
Cytogenetic Map10q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (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-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)
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)
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)
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)
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 (+)NCBIGRCr8
mRatBN7.21029,095,858 - 29,489,142 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1029,099,933 - 29,487,665 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1033,844,602 - 34,231,502 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0102,383,005 - 2,769,924 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01028,815,202 - 29,202,068 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01023,654,849 - 24,051,627 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1023,661,013 - 24,050,209 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01023,518,314 - 23,912,932 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41029,770,047 - 30,163,200 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11030,132,189 - 30,164,249 (+)NCBI
Celera1028,580,160 - 28,966,044 (+)NCBICelera
Cytogenetic Map10q21NCBI
EBF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385158,695,920 - 159,099,916 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5158,695,920 - 159,099,916 (-)EnsemblGRCh38hg38GRCh38
GRCh375158,122,928 - 158,526,924 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365158,058,006 - 158,459,347 (-)NCBINCBI36Build 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 Ensembl
GRCm381144,618,100 - 45,008,096 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1144,617,317 - 45,008,091 (+)EnsemblGRCm38mm10GRCm38
MGSCv371144,431,636 - 44,818,677 (+)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)EnsemblChiLan1.0
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 (-)Ensemblpanpan1.1panPan2
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha451,265,503 - 51,657,405 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0451,807,031 - 52,199,508 (+)NCBIROS_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_1.0
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
SpeTri2.0NW_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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473330,327,541 - 30,735,432 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ebf1
2314 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
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)10615418273453136Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
2298480Eau7Experimental allergic uveoretinitis QTL 70.0049uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)102795762634490668Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum immunoglobulin E level (CMO:0002101)102291826836400810Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat

Markers in Region
D10Mgh11  
Rat AssemblyChrPosition (strand)SourceJBrowse
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
RGSC_v3.11029,975,240 - 29,975,373RGD
Celera1028,778,788 - 28,778,925UniSTS
RH 3.4 Map10315.9UniSTS
RH 3.4 Map10315.9RGD
RH 2.0 Map10337.6RGD
Cytogenetic Map10q21UniSTS
D10Rat253  
Rat AssemblyChrPosition (strand)SourceJBrowse
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
RGSC_v3.11029,985,262 - 29,985,391RGD
Celera1028,788,748 - 28,788,876UniSTS
SHRSP x BN Map1032.8899RGD
SHRSP x BN Map1032.8899UniSTS
Cytogenetic Map10q21UniSTS
D10Mco53  
Rat AssemblyChrPosition (strand)SourceJBrowse
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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 89 88 57 25 57 6 216 97 93 45 60 31

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
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
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
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)
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 ENSRNOG00000016102 UniProtKB/TrEMBL
  ENSRNOG00000028845 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071435.3 UniProtKB/TrEMBL
  ENSRNOT00000076664.3 UniProtKB/TrEMBL
  ENSRNOT00000107995.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.4280 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.40.3180 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro COE_DBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COE_DBD_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COE_HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COE_IPT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_E-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IPT_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transcription_factor_COE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transcription_factor_COE_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:116543 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 116543 ENTREZGENE
PANTHER PTHR10747 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR COE1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR COE3 UniProtKB/TrEMBL
Pfam COE1_DBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COE1_HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ebf1 PhenoGen
PROSITE COE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000016102 RatGTEx
  ENSRNOG00000028845 RatGTEx
SMART IPT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF81296 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZU01 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QZ79 ENTREZGENE, 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