Rfx4 (regulatory factor X4) - Rat Genome Database

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Gene: Rfx4 (regulatory factor X4) Rattus norvegicus
Analyze
Symbol: Rfx4
Name: regulatory factor X4
RGD ID: 1562092
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including central nervous system development; negative regulation of smoothened signaling pathway; and regulation of gene expression. Predicted to be located in nucleus. Orthologous to human RFX4 (regulatory factor X4); INTERACTS WITH 1,3-dinitrobenzene; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC102552676; LOC500818; regulatory factor X, 4 (influences HLA class II expression); RGD1562092; similar to regulatory factor X 4 variant; transcription factor RFX4; transcription factor RFX4-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8720,740,760 - 20,903,355 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl720,741,079 - 20,902,851 (-)EnsemblGRCr8
mRatBN7.2718,853,065 - 19,015,378 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl718,853,322 - 19,014,967 (-)EnsemblmRatBN7.2
Rnor_6.0725,831,358 - 25,909,976 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl725,808,419 - 25,907,849 (+)Ensemblrn6Rnor6.0
Rnor_5.0725,966,111 - 26,038,982 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4720,976,369 - 21,052,088 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera716,067,975 - 16,205,907 (-)NCBICelera
Cytogenetic Map7q13NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
1,3-dinitrobenzene  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-palmitoylglycerol  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
aflatoxin B1  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
CU-O LINKAGE  (ISO)
cyanocob(III)alamin  (ISO)
decabromodiphenyl ether  (EXP,ISO)
dichloroacetic acid  (ISO)
dichloromethane  (ISO)
dorsomorphin  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
folic acid  (ISO)
fonofos  (ISO)
furan  (ISO)
glycine betaine  (ISO)
glyphosate  (EXP)
hydroxyurea  (ISO)
L-methionine  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (EXP)
methylmercury chloride  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-ethyl-N-nitrosourea  (ISO)
N-methyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
pirinixic acid  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
terbufos  (ISO)
testosterone  (EXP)
Tetrachlorobisphenol A  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
valproic acid  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IBA,IEA,ISO)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12925582   PMID:16893423   PMID:18218630   PMID:18459115   PMID:19887680  


Genomics

Comparative Map Data
Rfx4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8720,740,760 - 20,903,355 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl720,741,079 - 20,902,851 (-)EnsemblGRCr8
mRatBN7.2718,853,065 - 19,015,378 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl718,853,322 - 19,014,967 (-)EnsemblmRatBN7.2
Rnor_6.0725,831,358 - 25,909,976 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl725,808,419 - 25,907,849 (+)Ensemblrn6Rnor6.0
Rnor_5.0725,966,111 - 26,038,982 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4720,976,369 - 21,052,088 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera716,067,975 - 16,205,907 (-)NCBICelera
Cytogenetic Map7q13NCBI
RFX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812106,583,004 - 106,762,803 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12106,582,691 - 106,762,803 (+)Ensemblhg38GRCh38
GRCh3712106,976,782 - 107,156,581 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3612105,501,163 - 105,680,711 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3412105,479,499 - 105,659,047NCBI
Celera12106,642,624 - 106,822,170 (+)NCBICelera
Cytogenetic Map12q23.3NCBI
HuRef12104,036,963 - 104,216,955 (+)NCBIHuRef
CHM1_112106,942,490 - 107,122,407 (+)NCBICHM1_1
T2T-CHM13v2.012106,546,661 - 106,726,445 (+)NCBIT2T-CHM13v2.0
Rfx4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391084,591,895 - 84,742,402 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1084,591,926 - 84,742,402 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381084,756,036 - 84,906,538 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1084,756,062 - 84,906,538 (+)Ensemblmm10GRCm38
MGSCv371084,218,793 - 84,369,283 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361084,185,847 - 84,336,337 (+)NCBIMGSCv36mm8
Celera1086,730,140 - 86,884,321 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1041.63NCBI
Rfx4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540540,482,958 - 40,649,100 (+)Ensembl
ChiLan1.0NW_00495540540,483,391 - 40,648,992 (+)NCBIChiLan1.0ChiLan1.0
RFX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210114,640,787 - 114,818,800 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112114,637,177 - 114,815,197 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012104,152,816 - 104,330,383 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112107,550,254 - 107,724,623 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12107,550,254 - 107,724,623 (+)EnsemblpanPan2panpan1.1
RFX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11031,993,339 - 32,155,896 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1031,994,594 - 32,155,500 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1031,913,332 - 32,075,855 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01032,834,451 - 32,996,735 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1032,834,451 - 32,996,764 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11032,570,501 - 32,732,868 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01032,860,552 - 33,021,634 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01033,046,753 - 33,209,305 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Rfx4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494515,191,534 - 15,346,772 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364928,201,948 - 8,362,603 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364928,201,951 - 8,345,788 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RFX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl513,590,851 - 13,758,567 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1513,590,845 - 13,758,913 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2513,442,393 - 13,589,186 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RFX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111101,790,944 - 101,972,314 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl11101,791,212 - 101,972,362 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037143,075,985 - 143,255,187 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rfx4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247502,722,696 - 2,869,668 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247502,722,790 - 2,869,676 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Rfx4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11163,536,935 - 163,693,793 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Rfx4
2150 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:229
Count of miRNA genes:154
Interacting mature miRNAs:175
Transcripts:ENSRNOT00000009728, ENSRNOT00000059685, ENSRNOT00000059687
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7166965846669658Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7123748937Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7721609752216097Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)71051708662346019Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)71011291699900612Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)7131777942Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7170952746709527Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7132612984Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71011291660150541Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7946087754460877Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7129716167Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)71049882055498820Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71746044762460447Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134650782Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)72005723265057232Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7132612984Rat

Markers in Region
BE120144  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2718,899,604 - 18,899,803 (-)MAPPERmRatBN7.2
Rnor_6.0725,859,546 - 25,859,744NCBIRnor6.0
Rnor_5.0725,993,094 - 25,993,292UniSTSRnor5.0
RGSC_v3.4721,024,460 - 21,024,658UniSTSRGSC3.4
Celera716,114,195 - 16,114,393UniSTS
Cytogenetic Map7q13UniSTS
AU047726  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2718,899,948 - 18,900,062 (-)MAPPERmRatBN7.2
Rnor_6.0725,859,287 - 25,859,400NCBIRnor6.0
Rnor_5.0725,992,835 - 25,992,948UniSTSRnor5.0
RGSC_v3.4721,024,804 - 21,024,917UniSTSRGSC3.4
Celera716,114,539 - 16,114,652UniSTS
Cytogenetic Map7q13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
14 12 54 161 69 68 37 80 37 6 285 165 9 142 61 88 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001432568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432574 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432575 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063264400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063264401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063264402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063264403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063264404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000084955   ⟹   ENSRNOP00000072631
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl720,741,079 - 20,814,905 (-)Ensembl
mRatBN7.2 Ensembl718,853,322 - 18,927,135 (-)Ensembl
Rnor_6.0 Ensembl725,832,521 - 25,907,849 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000091571   ⟹   ENSRNOP00000074585
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl720,741,079 - 20,902,851 (-)Ensembl
mRatBN7.2 Ensembl718,853,322 - 19,014,967 (-)Ensembl
Rnor_6.0 Ensembl725,808,419 - 25,907,846 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114082   ⟹   ENSRNOP00000076359
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl720,741,079 - 20,898,215 (-)Ensembl
mRatBN7.2 Ensembl718,853,322 - 19,009,516 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000138684   ⟹   ENSRNOP00000103734
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl720,741,079 - 20,840,888 (-)Ensembl
RefSeq Acc Id: XM_006241183   ⟹   XP_006241245
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,814,816 (-)NCBI
mRatBN7.2718,854,385 - 18,927,139 (-)NCBI
Rnor_6.0725,831,358 - 25,909,976 (+)NCBI
Rnor_5.0725,966,111 - 26,038,982 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039080073   ⟹   XP_038936001
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,900,453 (-)NCBI
mRatBN7.2718,853,065 - 19,012,800 (-)NCBI
RefSeq Acc Id: XM_039080074   ⟹   XP_038936002
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,889,410 (-)NCBI
mRatBN7.2718,854,385 - 18,996,232 (-)NCBI
RefSeq Acc Id: XM_039080075   ⟹   XP_038936003
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,897,209 (-)NCBI
mRatBN7.2718,854,385 - 19,009,525 (-)NCBI
RefSeq Acc Id: XM_039080076   ⟹   XP_038936004
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,903,353 (-)NCBI
mRatBN7.2718,854,385 - 19,015,378 (-)NCBI
RefSeq Acc Id: XM_039080077   ⟹   XP_038936005
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,897,023 (-)NCBI
mRatBN7.2718,853,065 - 19,009,324 (-)NCBI
RefSeq Acc Id: XM_063264400   ⟹   XP_063120470
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,897,210 (-)NCBI
RefSeq Acc Id: XM_063264401   ⟹   XP_063120471
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,897,210 (-)NCBI
RefSeq Acc Id: XM_063264402   ⟹   XP_063120472
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,903,355 (-)NCBI
RefSeq Acc Id: XM_063264403   ⟹   XP_063120473
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,814,826 (-)NCBI
RefSeq Acc Id: XM_063264404   ⟹   XP_063120474
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8720,740,760 - 20,814,826 (-)NCBI
RefSeq Acc Id: XP_006241245   ⟸   XM_006241183
- Peptide Label: isoform X9
- UniProtKB: A0A0G2K3G6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000072631   ⟸   ENSRNOT00000084955
Ensembl Acc Id: ENSRNOP00000074585   ⟸   ENSRNOT00000091571
RefSeq Acc Id: XP_038936001   ⟸   XM_039080073
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936005   ⟸   XM_039080077
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038936004   ⟸   XM_039080076
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038936003   ⟸   XM_039080075
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038936002   ⟸   XM_039080074
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000076359   ⟸   ENSRNOT00000114082
RefSeq Acc Id: XP_063120472   ⟸   XM_063264402
- Peptide Label: isoform X7
RefSeq Acc Id: XP_063120470   ⟸   XM_063264400
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063120471   ⟸   XM_063264401
- Peptide Label: isoform X6
RefSeq Acc Id: XP_063120473   ⟸   XM_063264403
- Peptide Label: isoform X10
RefSeq Acc Id: XP_063120474   ⟸   XM_063264404
- Peptide Label: isoform X11
Ensembl Acc Id: ENSRNOP00000103734   ⟸   ENSRNOT00000138684
Protein Domains
RFX-type winged-helix   RFX1-4/6/8-like BCD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K8F2-F1-model_v2 AlphaFold A0A0G2K8F2 1-672 view protein structure

Transcriptome

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

Promoters
RGD ID:13695113
Promoter ID:EPDNEW_R5627
Type:single initiation site
Name:Rfx4_1
Description:regulatory factor X4
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_6.0725,832,484 - 25,832,544EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562092 AgrOrtholog
BioCyc Gene G2FUF-34623 BioCyc
Ensembl Genes ENSRNOG00000051536 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084955 ENTREZGENE
  ENSRNOT00000084955.3 UniProtKB/TrEMBL
  ENSRNOT00000091571 ENTREZGENE
  ENSRNOT00000091571.3 UniProtKB/TrEMBL
  ENSRNOT00000114082 ENTREZGENE
  ENSRNOT00000114082.2 UniProtKB/TrEMBL
  ENSRNOT00000138684 ENTREZGENE
  ENSRNOT00000138684.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
InterPro DNA-bd_RFX UniProtKB/TrEMBL
  RFX-like UniProtKB/TrEMBL
  RFX1-4/6/8-like_BCD UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene 500818 ENTREZGENE
PANTHER PTHR12619 UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR RFX4 UniProtKB/TrEMBL
Pfam BCD_RFX UniProtKB/TrEMBL
  RFX_DNA_binding UniProtKB/TrEMBL
PhenoGen Rfx4 PhenoGen
PROSITE RFX_DBD UniProtKB/TrEMBL
RatGTEx ENSRNOG00000051536 RatGTEx
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
UniProt A0A0G2K3G6 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K8F2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5XZT6 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LQ97_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Rfx4  regulatory factor X4  LOC102552676  transcription factor RFX4-like  Data merged from RGD:7694156 737654 PROVISIONAL
2015-12-09 Rfx4  regulatory factor X4  Rfx4  regulatory factor X, 4 (influences HLA class II expression)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-18 LOC102552676  transcription factor RFX4-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-02-29 Rfx4  regulatory factor X, 4 (influences HLA class II expression)  RGD1562092_predicted  similar to regulatory factor X 4 variant (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562092_predicted  similar to regulatory factor X 4 variant (predicted)  LOC500818  similar to regulatory factor X 4 variant  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500818  similar to regulatory factor X 4 variant      Symbol and Name status set to provisional 70820 PROVISIONAL