Rfx6 (regulatory factor X, 6) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Rfx6 (regulatory factor X, 6) Mus musculus
Analyze
Symbol: Rfx6
Name: regulatory factor X, 6
RGD ID: 1316717
MGI Page MGI
Description: Predicted to have DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in endocrine pancreas development; glucose homeostasis; and regulation of insulin secretion. Localizes to nucleus. Is expressed in several structures, including epididymis; gut; limb; liver; and sensory organ. Orthologous to human RFX6 (regulatory factor X6); INTERACTS WITH 1,2-dimethylhydrazine; 4,4'-sulfonyldiphenol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 4930572O07Rik; DNA-binding protein RFX6; regulatory factor X 6; regulatory factor X domain containing 1; regulatory factor X domain-containing protein 1; Rfxdc; Rfxdc1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391051,553,856 - 51,606,525 (+)NCBIGRCm39mm39
GRCm39 Ensembl1051,553,852 - 51,606,528 (+)Ensembl
GRCm381051,677,760 - 51,730,429 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1051,677,756 - 51,730,432 (+)EnsemblGRCm38mm10GRCm38
MGSCv371051,397,566 - 51,450,235 (+)NCBIGRCm37mm9NCBIm37
MGSCv361051,373,933 - 51,418,844 (+)NCBImm8
Celera1052,521,182 - 52,574,032 (+)NCBICelera
Cytogenetic Map10B3NCBI
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
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:18673564   PMID:20040487   PMID:20059953   PMID:20148032   PMID:21267068  
PMID:21677750   PMID:21873635   PMID:21911471   PMID:22013016   PMID:23192339   PMID:23823474   PMID:23977255   PMID:24194600   PMID:24411943   PMID:25497096   PMID:26901059   PMID:27736991  
PMID:28071588   PMID:28634551   PMID:30509498   PMID:31668390  


Genomics

Comparative Map Data
Rfx6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391051,553,856 - 51,606,525 (+)NCBIGRCm39mm39
GRCm39 Ensembl1051,553,852 - 51,606,528 (+)Ensembl
GRCm381051,677,760 - 51,730,429 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1051,677,756 - 51,730,432 (+)EnsemblGRCm38mm10GRCm38
MGSCv371051,397,566 - 51,450,235 (+)NCBIGRCm37mm9NCBIm37
MGSCv361051,373,933 - 51,418,844 (+)NCBImm8
Celera1052,521,182 - 52,574,032 (+)NCBICelera
Cytogenetic Map10B3NCBI
RFX6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6116,877,212 - 116,932,161 (+)EnsemblGRCh38hg38GRCh38
GRCh386116,877,218 - 116,932,163 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh376117,198,405 - 117,253,324 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366117,305,069 - 117,360,007 (+)NCBINCBI36hg18NCBI36
Build 346117,305,068 - 117,360,006NCBI
Celera6117,941,504 - 117,996,443 (+)NCBI
Cytogenetic Map6q22.1NCBI
HuRef6114,778,057 - 114,833,014 (+)NCBIHuRef
CHM1_16117,462,413 - 117,517,362 (+)NCBICHM1_1
Rfx6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22031,020,221 - 31,073,266 (+)NCBI
Rnor_6.0 Ensembl2032,717,564 - 32,764,035 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02032,709,282 - 32,764,040 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02034,493,868 - 34,548,443 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42030,344,712 - 30,391,212 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12030,348,823 - 30,404,388 (+)NCBI
Celera2032,442,819 - 32,488,055 (+)NCBICelera
Cytogenetic Map20q11NCBI
Rfx6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955436213,809 - 280,577 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955436213,810 - 278,699 (+)NCBIChiLan1.0ChiLan1.0
RFX6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16118,828,974 - 118,883,884 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6118,828,973 - 118,883,884 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06114,686,132 - 114,741,072 (+)NCBIMhudiblu_PPA_v0panPan3
RFX6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1157,242,563 - 57,297,300 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl157,241,927 - 57,296,546 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha158,037,221 - 58,092,973 (+)NCBI
ROS_Cfam_1.0157,424,008 - 57,479,757 (+)NCBI
UMICH_Zoey_3.1157,318,399 - 57,374,090 (+)NCBI
UNSW_CanFamBas_1.0157,166,427 - 57,222,136 (+)NCBI
UU_Cfam_GSD_1.0157,795,388 - 57,851,127 (+)NCBI
Rfx6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946107,987,726 - 108,038,262 (+)NCBI
SpeTri2.0NW_00493665894,589 - 145,135 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RFX6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl144,765,450 - 44,823,516 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1144,765,451 - 44,826,884 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2150,063,694 - 50,102,312 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RFX6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11356,889,160 - 56,948,304 (-)NCBI
ChlSab1.1 Ensembl1356,889,780 - 56,946,413 (-)Ensembl
Rfx6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462479812,735,428 - 12,795,502 (-)NCBI

Position Markers
Rfx6  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10B3UniSTS
cM Map10 UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302092Ath11_matherosclerosis 11 (mouse)Not determined10620194558857699Mouse
1357740Obsty3_mobesity 3 (mouse)Not determined108359714116355075Mouse
1301386Sysbp1_msystolic blood pressure 1 (mouse)Not determined101023252187565233Mouse
1357825Kidpq2_mkidney weight percentage QTL 2 (mouse)Not determined101282830784243920Mouse
1357656Hrtq3_mheart weight QTL 3 (mouse)Not determined101282830784243920Mouse
1357864Scfpq1_msubcutaneous fat pad percentage QTL 1 (mouse)Not determined101282830784243920Mouse
1357893Lvrq4_mliver weight QTL 4 (mouse)Not determined101282830784243920Mouse
4142380W3q11_mweight 3 weeks QTL 11 (mouse)Not determined1282830784243920Mouse
4141943W6q6_mweight 6 weeks QTL 6 (mouse)Not determined1282830784243920Mouse
4141956Egq7_mearly growth QTL 7 (mouse)Not determined1282830784243920Mouse
4142272W10q5_mweight 10 weeks QTL 5 (mouse)Not determined1282830784243920Mouse
39128215Lwq17_mliver weight QTL 17 (mouse)101282830784243920Mouse
1302067Scc9_mcolon tumor susceptibility 9 (mouse)Not determined1018383585125739363Mouse
27226772Tibl13_mtibia length 13, 10 week (mouse)1019000000129800000Mouse
10755518Chol16_mcholesterol 16 (mouse)101903904753039047Mouse
1302160Mbis2_mMycobacterium bovis-induced systemic lupus erythematosus 2 (mouse)Not determined102040743956155127Mouse
1558757Eae34_mexperimental allergic encephalomyelitis susceptibility 34 (mouse)Not determined1021532255114381325Mouse
1301003Lmblgq4_mlimb length QTL 4 (mouse)Not determined102171529368255809Mouse
26884403Cvht8_mcranial vault height 8, 16 week (mouse)102300000091200000Mouse
26884426Cvht1_mcranial vault height 1, 5 week (mouse)1024800000121200000Mouse
1300898Cfid_mcystic fibrosis intestinal distress (mouse)Not determined102984430763844387Mouse
10045632Heal16_mwound healing/regeneration 16 (mouse)Not determined103109840365098534Mouse
1357558Bmch4_mbone mechanical trait 4 (mouse)Not determined103170104065701188Mouse
27095920Pglq9_mpelvic girdle length QTL 9, 10 week (mouse)103390000071000000Mouse
27095911Pglq15_mpelvic girdle length QTL 15, 16 week (mouse)1039300000129800000Mouse
27226764Tibl19_mtibia length 19, 16 week (mouse)1039300000129800000Mouse
4141070Ltgq1_mliver triglyceride QTL 1 (mouse)Not determined4140150475401504Mouse
26884411Bzwq8_mbi-zygomatic width QTL 8, 10 week (mouse)1045000000116100000Mouse
26884407Bzwq14_mbi-zygomatic width QTL 14, 16 wee (mouse)1045600000120800000Mouse
26884421Cvht5_mcranial vault height 5, 10 week (mouse)104570000069300000Mouse
14697707Stsl2_mSalmonella typhimurium susceptibility locus 2 (mouse)104640000054000000Mouse
26884400Huml5_mhumerus length 5, 16 week (mouse)104640000069400000Mouse
4142313Angvq1_mangiogenesis by VEGF QTL 1 (mouse)Not determined4684430782655287Mouse
4141159Phl2_mprogressive hearing loss 2 (mouse)Not determined104809840370276821Mouse
1302150Bbaa18_mB.burgdorferi-associated arthritis 18 (mouse)Not determined104950223383502378Mouse
4142169Pbwg16_mpostnatal body weight growth 16 (mouse)Not determined105001240884012633Mouse
1300597Skull14_mskull morphology 14 (mouse)Not determined105001240884012633Mouse
10045641Jckm3_mjuvenile cystic kidney modifier 3 (mouse)Not determined105001240884012633Mouse
1301966Lifespan2_mlife span 2 (mouse)Not determined105001244384012618Mouse
1357737Hpcr2_mhepatocarcinogen resistance 2 (mouse)Not determined105001244384012618Mouse
1300882Ath17_matherosclerosis 17 (mouse)Not determined105125566085255809Mouse
1301502Eae17_msusceptibility to experimental allergic encephalomyelitis 17 (mouse)Not determined105125566085255809Mouse
1301380Cia8_mcollagen induced arthritis QTL 8 (mouse)Not determined105161730482655287Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:552
Count of miRNA genes:254
Interacting mature miRNAs:283
Transcripts:ENSMUST00000050455, ENSMUST00000122922, ENSMUST00000125729
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000050455   ⟹   ENSMUSP00000057384
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1051,685,518 - 51,730,429 (+)Ensembl
RefSeq Acc Id: ENSMUST00000122922   ⟹   ENSMUSP00000116057
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1051,677,756 - 51,730,432 (+)Ensembl
RefSeq Acc Id: ENSMUST00000217662
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1051,677,756 - 51,721,908 (+)Ensembl
RefSeq Acc Id: ENSMUST00000219364   ⟹   ENSMUSP00000151430
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1051,677,810 - 51,729,806 (+)Ensembl
RefSeq Acc Id: ENSMUST00000219771   ⟹   ENSMUSP00000151599
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1051,693,771 - 51,729,879 (+)Ensembl
RefSeq Acc Id: NM_001159389   ⟹   NP_001152861
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391051,553,856 - 51,606,525 (+)NCBI
GRCm381051,677,760 - 51,730,429 (+)NCBI
MGSCv371051,397,566 - 51,450,235 (+)RGD
Celera1052,521,182 - 52,574,032 (+)RGD
cM Map10 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_177306   ⟹   NP_796280
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391051,561,614 - 51,606,525 (+)NCBI
GRCm381051,685,518 - 51,730,429 (+)NCBI
MGSCv371051,397,566 - 51,450,235 (+)RGD
Celera1052,521,182 - 52,574,032 (+)RGD
cM Map10 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_796280   ⟸   NM_177306
- Peptide Label: isoform 2
- UniProtKB: Q8C7R7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001152861   ⟸   NM_001159389
- Peptide Label: isoform 1
- UniProtKB: Q8C7R7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000151430   ⟸   ENSMUST00000219364
RefSeq Acc Id: ENSMUSP00000151599   ⟸   ENSMUST00000219771
RefSeq Acc Id: ENSMUSP00000057384   ⟸   ENSMUST00000050455
RefSeq Acc Id: ENSMUSP00000116057   ⟸   ENSMUST00000122922
Protein Domains
RFX-type winged-helix

Promoters
RGD ID:8671952
Promoter ID:EPDNEW_M14007
Type:single initiation site
Name:Rfx6_1
Description:Mus musculus regulatory factor X, 6 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M14008  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381051,677,720 - 51,677,780EPDNEW
RGD ID:8671954
Promoter ID:EPDNEW_M14008
Type:single initiation site
Name:Rfx6_2
Description:Mus musculus regulatory factor X, 6 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M14007  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381051,694,934 - 51,694,994EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2445208 AgrOrtholog
Ensembl Genes ENSMUSG00000019900 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000057384 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000116057 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000151430 UniProtKB/TrEMBL
  ENSMUSP00000151599 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000050455 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000122922 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000219364 UniProtKB/TrEMBL
  ENSMUST00000219771 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro DNA-bd_RFX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RFX-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:320995 UniProtKB/Swiss-Prot
MGD MGI:2445208 ENTREZGENE
NCBI Gene 320995 ENTREZGENE
PANTHER PTHR12619 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam RFX_DNA_binding UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rfx6 PhenoGen
PROSITE RFX_DBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A1W2P7F2_MOUSE UniProtKB/TrEMBL
  D5FLC2_MOUSE UniProtKB/TrEMBL
  Q8C7R7 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q8CDN5 UniProtKB/Swiss-Prot