Brf2 (BRF2, RNA polymerase III transcription initiation factor 50kDa subunit) - Rat Genome Database

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Gene: Brf2 (BRF2, RNA polymerase III transcription initiation factor 50kDa subunit) Mus musculus
Analyze
Symbol: Brf2
Name: BRF2, RNA polymerase III transcription initiation factor 50kDa subunit
RGD ID: 1318807
MGI Page MGI
Description: Predicted to enable RNA polymerase III type 3 promoter sequence-specific DNA binding activity and TBP-class protein binding activity. Predicted to be involved in DNA-templated transcription initiation; cellular response to oxidative stress; and regulation of transcription by RNA polymerase III. Predicted to be part of transcription factor TFIIIB complex and transcription preinitiation complex. Predicted to be active in nucleus. Orthologous to human BRF2 (BRF2 RNA polymerase III transcription initiation factor subunit).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2700059M06Rik; 5730512K07Rik; AU018504; AU022602; B-related factor 2; BRF; BRF-2; BRF2, subunit of RNA polymerase III transcription initiation factor, BRF1-like; BRFU; TFIII; TFIIIB50; transcription factor IIIB 50 kDa subunit
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39827,613,367 - 27,618,743 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl827,613,392 - 27,618,708 (-)EnsemblGRCm39 Ensembl
GRCm38827,123,339 - 27,128,715 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl827,123,364 - 27,128,680 (-)EnsemblGRCm38mm10GRCm38
MGSCv37828,234,304 - 28,239,104 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36828,589,768 - 28,594,568 (-)NCBIMGSCv36mm8
Celera828,613,490 - 28,618,293 (-)NCBICelera
Cytogenetic Map8A2NCBI
cM Map815.91NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Cell growth- and differentiation-dependent regulation of RNA polymerase III transcription. Dumay-Odelot H, etal., Cell Cycle. 2010 Sep 15;9(18):3687-99. Epub 2010 Sep 1.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. A structural perspective on RNA polymerase I and RNA polymerase III transcription machineries. Vannini A Biochim Biophys Acta. 2013 Mar-Apr;1829(3-4):258-64. doi: 10.1016/j.bbagrm.2012.09.009. Epub 2012 Sep 29.
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10725249   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:12904583   PMID:14610273   PMID:15782199  
PMID:16141072   PMID:16141073   PMID:21267068   PMID:21677750   PMID:21873635  


Genomics

Comparative Map Data
Brf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39827,613,367 - 27,618,743 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl827,613,392 - 27,618,708 (-)EnsemblGRCm39 Ensembl
GRCm38827,123,339 - 27,128,715 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl827,123,364 - 27,128,680 (-)EnsemblGRCm38mm10GRCm38
MGSCv37828,234,304 - 28,239,104 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36828,589,768 - 28,594,568 (-)NCBIMGSCv36mm8
Celera828,613,490 - 28,618,293 (-)NCBICelera
Cytogenetic Map8A2NCBI
cM Map815.91NCBI
BRF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38837,843,268 - 37,849,861 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl837,843,268 - 37,849,861 (-)EnsemblGRCh38hg38GRCh38
GRCh37837,700,786 - 37,707,379 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36837,820,558 - 37,826,569 (-)NCBINCBI36Build 36hg18NCBI36
Build 34837,820,562 - 37,826,569NCBI
Celera836,652,978 - 36,659,011 (-)NCBICelera
Cytogenetic Map8p11.23NCBI
HuRef836,235,927 - 36,241,960 (-)NCBIHuRef
CHM1_1837,902,845 - 37,908,878 (-)NCBICHM1_1
T2T-CHM13v2.0838,119,669 - 38,126,265 (-)NCBIT2T-CHM13v2.0
Brf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81671,626,146 - 71,635,909 (+)NCBIGRCr8
mRatBN7.21664,928,334 - 64,933,057 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1664,928,300 - 64,933,059 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1670,211,909 - 70,216,635 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01673,618,242 - 73,622,968 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01668,863,717 - 68,868,440 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01669,089,955 - 69,094,678 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1669,089,955 - 69,094,680 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01668,763,911 - 68,768,633 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41669,250,416 - 69,255,138 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11669,250,621 - 69,255,340 (+)NCBI
Celera1662,847,875 - 62,852,598 (+)NCBICelera
Cytogenetic Map16q12.3NCBI
Brf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546313,547,071 - 13,554,277 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546313,549,571 - 13,553,946 (-)NCBIChiLan1.0ChiLan1.0
BRF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2756,404,884 - 56,410,953 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1832,122,595 - 32,128,045 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0837,144,341 - 37,150,371 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1834,321,741 - 34,327,625 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl834,321,746 - 34,327,622 (-)Ensemblpanpan1.1panPan2
BRF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11627,543,588 - 27,547,712 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1627,543,858 - 27,547,106 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1628,060,505 - 28,064,459 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01629,442,854 - 29,446,808 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1629,442,903 - 29,446,805 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11627,664,474 - 27,668,427 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01628,242,034 - 28,245,988 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01628,281,218 - 28,285,171 (+)NCBIUU_Cfam_GSD_1.0
Brf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494350,160,010 - 50,164,914 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367101,293,129 - 1,301,048 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367101,296,475 - 1,301,752 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BRF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1548,568,202 - 48,573,029 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11548,568,207 - 48,573,036 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21555,684,661 - 55,689,474 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BRF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1835,879,762 - 35,885,572 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl835,880,373 - 35,885,485 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660526,118,831 - 6,124,752 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Brf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247805,751,435 - 5,757,447 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247805,752,018 - 5,757,323 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Brf2
171 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:93
Count of miRNA genes:90
Interacting mature miRNAs:93
Transcripts:ENSMUST00000033877
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11533914Mts5_mmammary tumor susceptibility 5 (mouse)8130447432Mouse
4140978Nilac5_mnicotine induced locomotor activity 5 (mouse)Not determined8131773288Mouse
27226756Femd2_mfemur midshaft diameter 2, 5 week (mouse)8495000035067154Mouse
1301532Scc8_mcolon tumor susceptibility 8 (mouse)Not determined8721249935110107Mouse
1300906Ap8q_malcohol preference 8 QTL (mouse)Not determined8798418941984342Mouse
10412209Cypr7_mcytokine production 7 (mouse)Not determined8810320142103372Mouse
1301929Eae24_msusceptibility to experimental allergic encephalomyelitis 24 (mouse)Not determined8810320142103372Mouse
1301128Sluc20_msusceptibility to lung cancer 20 (mouse)Not determined8810320142103372Mouse
11532713Sluc42_msusceptibility to lung cancer 42 (mouse)81344721035321225Mouse
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81477316071498244Mouse
1301088Alcw6_malcohol withdrawal 6 (mouse)Not determined81550657249506729Mouse
1300912Daq19_mdirectional asymmetry QTL 19 (mouse)Not determined81550657249506729Mouse
1301298Pgia4_mproteoglycan induced arthritis 4 (mouse)Not determined81656937350569697Mouse
4142199Poats1_mpost-ovarectomy adrenal tumor susceptibility 1 (mouse)Not determined1708262628849467Mouse
1301550Fembrs2_mfemur breaking strength 2 (mouse)Not determined81832109752321225Mouse
1301160Eae14_msusceptibility to experimental allergic encephalomyelitis 14 (mouse)Not determined81945501853455150Mouse
1300603Cd8ts2_mCD8 T cell subset 2 (mouse)Not determined81945501853455150Mouse
10043974Obq30_mobesity QTL 30 (mouse)Not determined82658332260583322Mouse

Markers in Region
AU022602  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38827,125,926 - 27,126,136UniSTSGRCm38
MGSCv37828,236,398 - 28,236,608UniSTSGRCm37
Celera828,615,587 - 28,615,797UniSTS
Cytogenetic Map8A2UniSTS
Whitehead/MRC_RH8313.27UniSTS
UniSTS:235860  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38827,123,376 - 27,123,577UniSTSGRCm38
MGSCv37828,233,848 - 28,234,049UniSTSGRCm37
Celera828,613,034 - 28,613,235UniSTS
Cytogenetic Map8A2UniSTS
Cytogenetic Map8A3UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000033877   ⟹   ENSMUSP00000033877
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl827,613,392 - 27,618,708 (-)Ensembl
GRCm38.p6 Ensembl827,123,364 - 27,128,680 (-)Ensembl
RefSeq Acc Id: ENSMUST00000209770   ⟹   ENSMUSP00000147259
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl827,616,122 - 27,618,682 (-)Ensembl
GRCm38.p6 Ensembl827,126,094 - 27,128,654 (-)Ensembl
RefSeq Acc Id: ENSMUST00000210230
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl827,614,528 - 27,618,641 (-)Ensembl
GRCm38.p6 Ensembl827,124,500 - 27,128,613 (-)Ensembl
RefSeq Acc Id: ENSMUST00000210552   ⟹   ENSMUSP00000147711
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl827,615,655 - 27,618,660 (-)Ensembl
GRCm38.p6 Ensembl827,125,627 - 27,128,632 (-)Ensembl
RefSeq Acc Id: ENSMUST00000210590
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl827,615,436 - 27,617,547 (-)Ensembl
GRCm38.p6 Ensembl827,125,408 - 27,127,519 (-)Ensembl
RefSeq Acc Id: ENSMUST00000211151   ⟹   ENSMUSP00000147950
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl827,614,640 - 27,618,651 (-)Ensembl
GRCm38.p6 Ensembl827,124,612 - 27,128,623 (-)Ensembl
RefSeq Acc Id: ENSMUST00000211236   ⟹   ENSMUSP00000147895
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl827,614,233 - 27,615,539 (-)Ensembl
GRCm38.p6 Ensembl827,124,205 - 27,125,511 (-)Ensembl
RefSeq Acc Id: NM_025686   ⟹   NP_079962
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39827,613,860 - 27,618,660 (-)NCBI
GRCm38827,123,832 - 27,128,632 (-)NCBI
MGSCv37828,234,304 - 28,239,104 (-)RGD
Celera828,613,490 - 28,618,293 (-)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006509180   ⟹   XP_006509243
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39827,613,367 - 27,618,743 (-)NCBI
GRCm38827,123,339 - 27,128,715 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006509181   ⟹   XP_006509244
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39827,613,367 - 27,615,833 (-)NCBI
GRCm38827,123,339 - 27,125,805 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036154240   ⟹   XP_036010133
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39827,613,367 - 27,618,727 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_079962   ⟸   NM_025686
- UniProtKB: Q9CZF0 (UniProtKB/Swiss-Prot),   Q3UAW9 (UniProtKB/Swiss-Prot),   A0A0R4J0C6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006509243   ⟸   XM_006509180
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006509244   ⟸   XM_006509181
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSMUSP00000147895   ⟸   ENSMUST00000211236
RefSeq Acc Id: ENSMUSP00000147950   ⟸   ENSMUST00000211151
RefSeq Acc Id: ENSMUSP00000147711   ⟸   ENSMUST00000210552
RefSeq Acc Id: ENSMUSP00000033877   ⟸   ENSMUST00000033877
RefSeq Acc Id: ENSMUSP00000147259   ⟸   ENSMUST00000209770
RefSeq Acc Id: XP_036010133   ⟸   XM_036154240
- Peptide Label: isoform X1
Protein Domains
TFIIB-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3UAW9-F1-model_v2 AlphaFold Q3UAW9 1-420 view protein structure

Promoters
RGD ID:8666809
Promoter ID:EPDNEW_M11435
Type:initiation region
Name:Brf2_1
Description:Mus musculus BRF2, RNA polymerase III transcription initiationfactor 50kDa subunit , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38827,128,632 - 27,128,692EPDNEW
RGD ID:6842861
Promoter ID:MM_KWN:54052
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:NM_025686
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36828,238,641 - 28,239,141 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1913903 AgrOrtholog
Ensembl Genes ENSMUSG00000031487 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000033877 ENTREZGENE
  ENSMUST00000033877.6 UniProtKB/TrEMBL
  ENSMUST00000209770.2 UniProtKB/TrEMBL
  ENSMUST00000210552.2 UniProtKB/TrEMBL
  ENSMUST00000211151.2 UniProtKB/TrEMBL
  ENSMUST00000211236.2 UniProtKB/TrEMBL
Gene3D-CATH 2.20.25.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Cyclin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TFIIB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_TFIIB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:66653 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1913903 ENTREZGENE
NCBI Gene 66653 ENTREZGENE
PANTHER PTHR11618 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR IIIB 50 KDA SUBUNIT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TF_Zn_Ribbon UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Brf2 PhenoGen
PROSITE ZF_TFIIB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47954 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Zinc beta-ribbon UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0R4J0C6 ENTREZGENE, UniProtKB/TrEMBL
  A0A1B0GRY1_MOUSE UniProtKB/TrEMBL
  A0A1B0GSD6_MOUSE UniProtKB/TrEMBL
  BRF2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q9CZF0 ENTREZGENE
UniProt Secondary Q9CZF0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-22 Brf2  BRF2, RNA polymerase III transcription initiation factor 50kDa subunit    BRF2, subunit of RNA polymerase III transcription initiation factor, BRF1-like  Symbol and/or name change 5135510 APPROVED