Ubtf (upstream binding transcription factor) - Rat Genome Database

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Gene: Ubtf (upstream binding transcription factor) Rattus norvegicus
Analyze
Symbol: Ubtf
Name: upstream binding transcription factor
RGD ID: 3927
Description: Predicted to enable several functions, including RNA polymerase I general transcription initiation factor activity; RNA polymerase I transcription regulatory region sequence-specific DNA binding activity; and scaffold protein binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase I and transcription initiation at RNA polymerase I promoter. Predicted to act upstream of or within cellular response to leukemia inhibitory factor and transcription elongation by RNA polymerase I. Located in fibrillar center. Human ortholog(s) of this gene implicated in childhood-onset neurodegeneration with brain atrophy. Orthologous to human UBTF (upstream binding transcription factor); PARTICIPATES IN cisplatin drug pathway; RNA polymerase I transcription pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC679205; nucleolar transcription factor 1; similar to Nucleolar transcription factor 1 (Upstream-binding factor 1) (UBF-1); Tcfubf; Transcription factor UBF; UBF-1; upstream binding transcription factor, RNA polymerase I; upstream-binding factor 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81087,758,346 - 87,775,377 (-)NCBIGRCr8
GRCr8 Ensembl1087,758,346 - 87,773,088 (-)EnsemblGRCr8 Ensembl
mRatBN7.21087,258,217 - 87,274,291 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1087,258,217 - 87,272,969 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1092,288,071 - 92,302,797 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01091,759,767 - 91,774,430 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01087,153,085 - 87,167,748 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01090,250,275 - 90,265,772 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1090,250,275 - 90,265,017 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01090,036,613 - 90,051,685 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41091,385,368 - 91,398,458 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1085,973,415 - 86,009,030 (-)NCBICelera
RGSC_v3.11091,400,434 - 91,410,657 (-)NCBI
Cytogenetic Map10q32.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP,ISO)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
cadmium sulfate  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
carbon nanotube  (ISO)
chlorpyrifos  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
dextran sulfate  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
Evodiamine  (ISO)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
genistein  (ISO)
gentamycin  (EXP)
haloperidol  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
nitrates  (ISO)
paracetamol  (EXP,ISO)
phenethyl isothiocyanate  (EXP)
phenobarbital  (ISO)
pirinixic acid  (EXP)
potassium chromate  (ISO)
progesterone  (ISO)
rotenone  (ISO)
tamoxifen  (ISO)
thapsigargin  (EXP)
theophylline  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
fibrillar center  (IDA,IEA,ISO)
nucleolus  (IEA,ISO,ISS)
nucleus  (IBA,IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Cardiac hypertrophy in vivo is associated with increased expression of the ribosomal gene transcription factor UBF. Brandenburger Y, etal., FEBS Lett. 2003 Jul 31;548(1-3):79-84.
2. The giant fibrillar center: a nucleolar structure enriched in upstream binding factor (UBF) that appears in transcriptionally more active sensory ganglia neurons. Casafont I, etal., J Struct Biol. 2007 Sep;159(3):451-61. Epub 2007 May 25.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. TFIIB-related factors in RNA polymerase I transcription. Knutson BA and Hahn S, Biochim Biophys Acta. 2013 Mar-Apr;1829(3-4):265-73. doi: 10.1016/j.bbagrm.2012.08.003. Epub 2012 Aug 30.
6. Ribosomal biogenesis induction by high glucose requires activation of upstream binding factor in kidney glomerular epithelial cells. Mariappan MM, etal., Am J Physiol Renal Physiol. 2011 Jan;300(1):F219-30. doi: 10.1152/ajprenal.00207.2010. Epub 2010 Oct 13.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. Identification of two forms of the RNA polymerase I transcription factor UBF. O'Mahony DJ and Rothblum LI, Proc Natl Acad Sci U S A 1991 Apr 15;88(8):3180-4.
10. GOA pipeline RGD automated data pipeline
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. RNA polymerase I activity is regulated at multiple steps in the transcription cycle: recent insights into factors that influence transcription elongation. Schneider DA Gene. 2012 Feb 10;493(2):176-84. doi: 10.1016/j.gene.2011.08.006. Epub 2011 Aug 26.
13. Proteomics profiling of nuclear proteins for kidney fibroblasts suggests hypoxia, meiosis, and cancer may meet in the nucleus. Shakib K, etal., Proteomics. 2005 Jul;5(11):2819-38.
14. Inhibition of transcription by platinum antitumor compounds. Todd RC and Lippard SJ, Metallomics. 2009;1(4):280-91. doi: 10.1039/b907567d.
15. Mitotic occupancy and lineage-specific transcriptional control of rRNA genes by Runx2. Young DW, etal., Nature. 2007 Jan 25;445(7126):442-6.
Additional References at PubMed
PMID:10099786   PMID:11106745   PMID:11555636   PMID:12498690   PMID:12878164   PMID:14729462   PMID:15989966   PMID:16129783   PMID:17182730   PMID:19103806   PMID:20168299   PMID:20168301  
PMID:20439489   PMID:22368283   PMID:22681889   PMID:23203802   PMID:23562818   PMID:26089203   PMID:28777933  


Genomics

Comparative Map Data
Ubtf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81087,758,346 - 87,775,377 (-)NCBIGRCr8
GRCr8 Ensembl1087,758,346 - 87,773,088 (-)EnsemblGRCr8 Ensembl
mRatBN7.21087,258,217 - 87,274,291 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1087,258,217 - 87,272,969 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1092,288,071 - 92,302,797 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01091,759,767 - 91,774,430 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01087,153,085 - 87,167,748 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01090,250,275 - 90,265,772 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1090,250,275 - 90,265,017 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01090,036,613 - 90,051,685 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41091,385,368 - 91,398,458 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1085,973,415 - 86,009,030 (-)NCBICelera
RGSC_v3.11091,400,434 - 91,410,657 (-)NCBI
Cytogenetic Map10q32.1NCBI
UBTF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381744,205,040 - 44,221,304 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1744,205,033 - 44,221,626 (-)EnsemblGRCh38hg38GRCh38
GRCh371742,282,408 - 42,298,672 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361739,637,927 - 39,653,776 (-)NCBINCBI36Build 36hg18NCBI36
Build 341739,639,487 - 39,651,190NCBI
Celera1738,991,137 - 39,006,972 (-)NCBICelera
Cytogenetic Map17q21.31NCBI
HuRef1738,046,143 - 38,062,692 (-)NCBIHuRef
CHM1_11742,517,584 - 42,534,295 (-)NCBICHM1_1
T2T-CHM13v2.01745,058,143 - 45,074,402 (-)NCBIT2T-CHM13v2.0
Ubtf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911102,195,393 - 102,214,738 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11102,195,386 - 102,210,568 (-)EnsemblGRCm39 Ensembl
GRCm3811102,304,560 - 102,323,649 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11102,304,560 - 102,319,742 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711102,165,874 - 102,180,410 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611102,122,081 - 102,132,564 (-)NCBIMGSCv36mm8
Celera11114,011,670 - 114,026,179 (-)NCBICelera
Cytogenetic Map11DNCBI
cM Map1166.29NCBI
Ubtf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545117,294,251 - 17,302,746 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545117,294,163 - 17,302,807 (-)NCBIChiLan1.0ChiLan1.0
UBTF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21920,685,911 - 20,702,028 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11722,651,266 - 22,666,377 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01713,176,228 - 13,191,283 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11713,343,349 - 13,356,836 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1713,343,349 - 13,356,836 (+)Ensemblpanpan1.1panPan2
UBTF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1919,177,778 - 19,189,805 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl919,179,174 - 19,189,181 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha918,565,897 - 18,580,760 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0919,870,605 - 19,885,473 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl919,870,765 - 19,887,013 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1918,724,292 - 18,739,147 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0918,907,547 - 18,922,382 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0919,051,984 - 19,066,857 (+)NCBIUU_Cfam_GSD_1.0
Ubtf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560218,507,113 - 18,523,420 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936541671,157 - 684,240 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936541671,178 - 687,485 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBTF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1218,989,836 - 19,006,129 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11218,989,833 - 19,006,145 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21219,292,305 - 19,302,395 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UBTF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11662,168,288 - 62,184,902 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1662,171,666 - 62,182,320 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607732,937,552 - 32,954,106 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ubtf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624795768,697 - 780,639 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624795768,627 - 779,174 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ubtf
116 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:156
Count of miRNA genes:67
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000048418, ENSRNOT00000064283
Prediction methods:Miranda, Rnahybrid
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
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105107189796071897Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102702353598502431Rat
8657410Bp374Blood pressure QTL 374heart left ventricle size trait (VT:0002753)heart left ventricle end-diastolic diameter (CMO:0000982)1067476608107713808Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103550938391417879Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063719161107713808Rat
631555Bp134Blood pressure QTL 1340.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)108101207791729860Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042546145107713808Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1058073360103073360Rat
12903252Cm113Cardiac mass QTL 1130.047heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105429633699451733Rat
4889948Bss91Bone structure and strength QTL 914tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)108306123692869129Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105046480295464802Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1064939013107713808Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076951790107713808Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)1079272424102982300Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104493935989939359Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104552916496099749Rat
70168Eae12Experimental allergic encephalomyelitis QTL 120.0009nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1073599825107713808Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1054296227107713808Rat
10450495Bp383Blood pressure QTL 3830.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107674313395464802Rat
12903269Am15Aortic mass QTL 150.042aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
10450493Bp382Blood pressure QTL 3820.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105086028895860288Rat
12903266Cm114Cardiac mass QTL 1140.02heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1066817119107713808Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2292617Ept18Estrogen-induced pituitary tumorigenesis QTL 183.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107395035396620293Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062556066107556066Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14282327487823274Rat
12880372Am12Aortic mass QTL 120.003aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062556066107556066Rat
12880375Kidm66Kidney mass QTL 660.009kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104493935989939359Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106724133498502431Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
12880370Cm105Cardiac mass QTL 1050.008heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104282327487823274Rat
12880371Cm106Cardiac mass QTL 1060.007heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106184349698710773Rat
11565453Kidm58Kidney mass QTL 580.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)107369533997272278Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1081012077101828297Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102293137391127454Rat
2306793Ean5Experimental allergic neuritis QTL 54.7nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)107304965694495280Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)104949549294495492Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1052269185107713808Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068920187107713808Rat
1358915Stresp7Stress response QTL 73.52blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)1065307813107713808Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1061843496106843496Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)102980091091417879Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070698731107713808Rat
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
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105530797293608131Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)1061843496100198886Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104360879388608793Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040535708107713808Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104994371094943710Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104493935989939359Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1066108888107555881Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1061843496100198886Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104786912992869129Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
12880055Am11Aortic mass QTL 110.004aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)108450348796432422Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107674313395604677Rat
2301398Kidm38Kidney mass QTL 380.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)108450348796432422Rat
2292436Bp310Blood pressure QTL 310arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105060467795604677Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103550938388177745Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
1358188Ept9Estrogen-induced pituitary tumorigenesis QTL 93.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107395035396620293Rat
631537Oia4Oil induced arthritis QTL 4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1076128947107713808Rat
634354Rends3Renal damage susceptibility QTL 30.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)1061997479106997479Rat
2301405Cm69Cardiac mass QTL 690.031heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102702353599451848Rat


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 91 90 59 25 59 6 218 97 93 45 60 31

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001105723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001127690 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006247262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006247263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006247264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268480 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC134158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M61725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M61726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000048418   ⟹   ENSRNOP00000044305
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1087,758,346 - 87,773,088 (-)Ensembl
mRatBN7.2 Ensembl1087,258,217 - 87,272,961 (-)Ensembl
Rnor_6.0 Ensembl1090,250,275 - 90,265,017 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000064283   ⟹   ENSRNOP00000063740
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1087,758,346 - 87,773,088 (-)Ensembl
mRatBN7.2 Ensembl1087,258,217 - 87,272,961 (-)Ensembl
Rnor_6.0 Ensembl1090,250,275 - 90,265,017 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000105635   ⟹   ENSRNOP00000085418
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1087,267,958 - 87,272,969 (-)Ensembl
RefSeq Acc Id: NM_001105723   ⟹   NP_001099193
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,758,346 - 87,773,088 (-)NCBI
mRatBN7.21087,258,217 - 87,272,961 (-)NCBI
Rnor_6.01090,250,275 - 90,265,017 (-)NCBI
Rnor_5.01090,036,613 - 90,051,685 (-)NCBI
RGSC_v3.41091,385,368 - 91,398,458 (-)RGD
Celera1085,973,415 - 86,009,030 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001127690   ⟹   NP_001121162
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,758,346 - 87,773,088 (-)NCBI
mRatBN7.21087,258,217 - 87,272,961 (-)NCBI
Rnor_6.01090,250,275 - 90,265,017 (-)NCBI
Rnor_5.01090,036,613 - 90,051,685 (-)NCBI
RGSC_v3.41091,385,368 - 91,398,458 (-)RGD
Celera1085,973,415 - 86,009,030 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006247262   ⟹   XP_006247324
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,759,951 - 87,771,828 (-)NCBI
mRatBN7.21087,259,821 - 87,271,701 (-)NCBI
Rnor_6.01090,250,280 - 90,263,758 (-)NCBI
Rnor_5.01090,036,613 - 90,051,685 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006247264   ⟹   XP_006247326
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,759,951 - 87,775,377 (-)NCBI
mRatBN7.21087,259,821 - 87,274,291 (-)NCBI
Rnor_6.01090,250,280 - 90,265,772 (-)NCBI
Rnor_5.01090,036,613 - 90,051,685 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063268478   ⟹   XP_063124548
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,759,951 - 87,771,425 (-)NCBI
RefSeq Acc Id: XM_063268479   ⟹   XP_063124549
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,759,951 - 87,771,828 (-)NCBI
RefSeq Acc Id: XM_063268480   ⟹   XP_063124550
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,759,951 - 87,771,425 (-)NCBI
RefSeq Acc Id: XM_063268481   ⟹   XP_063124551
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81087,759,951 - 87,775,377 (-)NCBI
RefSeq Acc Id: NP_001121162   ⟸   NM_001127690
- Peptide Label: isoform 2
- UniProtKB: P25978 (UniProtKB/Swiss-Prot),   P25977 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001099193   ⟸   NM_001105723
- Peptide Label: isoform 1
- UniProtKB: P25977 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006247326   ⟸   XM_006247264
- Peptide Label: isoform X1
- UniProtKB: P25978 (UniProtKB/Swiss-Prot),   P25977 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006247324   ⟸   XM_006247262
- Peptide Label: isoform X1
- UniProtKB: P25978 (UniProtKB/Swiss-Prot),   P25977 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000044305   ⟸   ENSRNOT00000048418
Ensembl Acc Id: ENSRNOP00000063740   ⟸   ENSRNOT00000064283
Ensembl Acc Id: ENSRNOP00000085418   ⟸   ENSRNOT00000105635
RefSeq Acc Id: XP_063124551   ⟸   XM_063268481
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063124549   ⟸   XM_063268479
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063124550   ⟸   XM_063268480
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063124548   ⟸   XM_063268478
- Peptide Label: isoform X1
- UniProtKB: P25978 (UniProtKB/Swiss-Prot),   P25977 (UniProtKB/Swiss-Prot)
Protein Domains
HMG box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P25977-F1-model_v2 AlphaFold P25977 1-764 view protein structure

Transcriptome

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

Promoters
RGD ID:13697782
Promoter ID:EPDNEW_R8307
Type:initiation region
Name:Ubtf_1
Description:upstream binding transcription factor, RNA polymerase I
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_6.01090,264,989 - 90,265,049EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3927 AgrOrtholog
BioCyc Gene G2FUF-23112 BioCyc
Ensembl Genes ENSRNOG00000020937 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000048418 ENTREZGENE
  ENSRNOT00000048418.5 UniProtKB/Swiss-Prot
  ENSRNOT00000064283 ENTREZGENE
  ENSRNOT00000064283.4 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot
InterPro HMG_box_5 UniProtKB/Swiss-Prot
  HMG_box_dom UniProtKB/Swiss-Prot
  HMG_box_dom_sf UniProtKB/Swiss-Prot
  UBF1 UniProtKB/Swiss-Prot
KEGG Report rno:25574 UniProtKB/Swiss-Prot
NCBI Gene 25574 ENTREZGENE
PANTHER NUCLEOLAR TRANSCRIPTION FACTOR 1 UniProtKB/Swiss-Prot
  UPSTREAM BINDING TRANSCRIPTION FACTOR UniProtKB/Swiss-Prot
Pfam HMG_box UniProtKB/Swiss-Prot
  HMG_box_2 UniProtKB/Swiss-Prot
  HMG_box_5 UniProtKB/Swiss-Prot
PhenoGen Ubtf PhenoGen
PROSITE HMG_BOX_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000020937 RatGTEx
SMART HMG UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47095 UniProtKB/Swiss-Prot
UniProt A0A8I6A1L0_RAT UniProtKB/TrEMBL
  A6HJI3_RAT UniProtKB/TrEMBL
  P25977 ENTREZGENE
  P25978 ENTREZGENE
  UBF1_RAT UniProtKB/Swiss-Prot
UniProt Secondary P25978 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-02-12 Ubtf  upstream binding transcription factor  Ubtf  upstream binding transcription factor, RNA polymerase I  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-04-12 Ubtf  upstream binding transcription factor, RNA polymerase I  LOC679205  similar to Nucleolar transcription factor 1 (Upstream-binding factor 1) (UBF-1)  Data merged from RGD:1590752 737654 PROVISIONAL
2006-11-20 LOC679205  similar to Nucleolar transcription factor 1 (Upstream-binding factor 1) (UBF-1)      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Ubtf  upstream binding transcription factor, RNA polymerase I  Tcfubf  transcription factor UBF  Symbol and Name updated 1299863 APPROVED
2003-04-09 Tcfubf  transcription factor UBF  Ubtf  Transcription factor UBF  Symbol and Name updated 629477 APPROVED
2002-06-10 Ubtf  Transcription factor UBF      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function binds to UPE and CPE of 45S RNA promoter 634406