Rfx4 (regulatory factor X, 4 (influences HLA class II expression)) - Rat Genome Database

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Gene: Rfx4 (regulatory factor X, 4 (influences HLA class II expression)) Mus musculus
Analyze
Symbol: Rfx4
Name: regulatory factor X, 4 (influences HLA class II expression)
RGD ID: 1557863
MGI Page MGI
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. Acts upstream of or within several processes, including cilium assembly; negative regulation of smoothened signaling pathway; and regulation of gene expression. Located in nucleus. Is expressed in several structures, including central nervous system; eye; future brain; genitourinary system; and liver. Orthologous to human RFX4 (regulatory factor X4).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4933412G19Rik; NYD-sp10; regulatory factor X 4; transcription factor RFX4; winged-helix transcription factor RFX4
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
GRCm391084,591,895 - 84,742,402 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1084,591,926 - 84,742,402 (+)EnsemblGRCm39 Ensembl
GRCm381084,756,036 - 84,906,538 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1084,756,062 - 84,906,538 (+)EnsemblGRCm38mm10GRCm38
MGSCv371084,218,793 - 84,369,283 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361084,185,847 - 84,336,337 (+)NCBIMGSCv36mm8
Celera1086,730,140 - 86,884,321 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1041.63NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IDA)

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12925582   PMID:14610273   PMID:14701801   PMID:15256482   PMID:15314648   PMID:16141072   PMID:16141073   PMID:16783635  
PMID:16893423   PMID:17510980   PMID:18218630   PMID:18287559   PMID:18799693   PMID:19596083   PMID:19741146   PMID:19887680   PMID:19906978   PMID:20059953   PMID:20148032   PMID:20211142  
PMID:21267068   PMID:21677750   PMID:21731673   PMID:21873635   PMID:22235033   PMID:22417325   PMID:24531968   PMID:28378742   PMID:29298325   PMID:30914320   PMID:34321999   PMID:37196079  


Genomics

Comparative Map Data
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 Ensembl
GRCm381084,756,036 - 84,906,538 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1084,756,062 - 84,906,538 (+)EnsemblGRCm38mm10GRCm38
MGSCv371084,218,793 - 84,369,283 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361084,185,847 - 84,336,337 (+)NCBIMGSCv36mm8
Celera1086,730,140 - 86,884,321 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1041.63NCBI
RFX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812106,583,004 - 106,762,803 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12106,583,004 - 106,762,803 (+)EnsemblGRCh38hg38GRCh38
GRCh3712106,976,782 - 107,156,581 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3612105,501,163 - 105,680,711 (+)NCBINCBI36Build 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
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8720,740,760 - 20,903,355 (-)NCBIGRCr8
mRatBN7.2718,853,065 - 19,015,378 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl718,853,322 - 19,014,967 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0725,831,358 - 25,909,976 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl725,808,419 - 25,907,849 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0725,966,111 - 26,038,982 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4720,976,369 - 21,052,088 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera716,067,975 - 16,205,907 (-)NCBICelera
Cytogenetic Map7q13NCBI
Rfx4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540540,482,958 - 40,649,100 (+)EnsemblChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1031,913,332 - 32,075,855 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01032,834,451 - 32,996,735 (-)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364928,201,951 - 8,345,788 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POLR3B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl513,590,851 - 13,758,567 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247502,722,790 - 2,869,676 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rfx4
5011 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1531
Count of miRNA genes:467
Interacting mature miRNAs:552
Transcripts:ENSMUST00000020226, ENSMUST00000060397, ENSMUST00000095388, ENSMUST00000165868, ENSMUST00000166696, ENSMUST00000173479
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302035Lmb4_mlupus in MRL and B6 F2 cross (mouse)Not determined106684818792258673Mouse
12910789Pwgrq19_mpost-weaning growth rate QTL 19 (mouse)108282870092169056Mouse
1300882Ath17_matherosclerosis 17 (mouse)Not determined105109149085091639Mouse
4142137Femwf3_mfemur work to failure 3 (mouse)Not determined75338568109338767Mouse
1301787Bsc1_mbrain size control 1 (mouse)Not determined105851696992517096Mouse
27226772Tibl13_mtibia length 13, 10 week (mouse)1018875748129635869Mouse
1357594Estoq3_membryo survival total QTL 3 (mouse)Not determined1084079650122041528Mouse
14746991Manh68_mmandible shape 68 (mouse)105228049786280497Mouse
27226764Tibl19_mtibia length 19, 16 week (mouse)1039175996129635869Mouse
4141479W10q8_mweight 10 weeks QTL 8 (mouse)Not determined84079650122041528Mouse
1301386Sysbp1_msystolic blood pressure 1 (mouse)Not determined101010826587401095Mouse
14747004Mancz8_mmandible centroid size 8 (mouse)1082078412116078412Mouse
4142496W6q8_mweight 6 weeks QTL 8 (mouse)Not determined84079650122041528Mouse
1302067Scc9_mcolon tumor susceptibility 9 (mouse)Not determined1018259333125575232Mouse
11039497Ltpr5a_mLeishmania tropica response 5a (mouse)1073506901107507047Mouse
26884411Bzwq8_mbi-zygomatic width QTL 8, 10 week (mouse)1044876096115935905Mouse
1357622Espq3_membryo survival preimplantation QTL 3 (mouse)Not determined1084079650122041528Mouse
4142365Egq9_mearly growth QTL 9 (mouse)Not determined84079650122041528Mouse
1300533Aem3_manti-erythrocyte autoantibody modifier 3 (mouse)Not determined106549093899491121Mouse
26884403Cvht8_mcranial vault height 8, 16 week (mouse)102287589991035862Mouse
26884407Bzwq14_mbi-zygomatic width QTL 14, 16 wee (mouse)1045476096120635905Mouse
11251717Siim1_mstress induced immobility 1 (mouse)1078381268112381268Mouse
26884405Huml2_mhumerus length 2, 5 week (mouse)1069735830130430862Mouse
1357740Obsty3_mobesity 3 (mouse)Not determined108235478116190980Mouse
13208560Wght9_mweight 9 (mouse)1059835822120835905Mouse
1301165Lith7_mlithogenic gene 7 (mouse)Not determined1082309418116309657Mouse
1302060El3_mepilepsy 3 (mouse)Not determined106549093899491121Mouse
4141054mwfh_mmodifier of white forlock hypopigmentation (mouse)Not determined83017003117017136Mouse
26884447Sklq9_mskull length QTL 9, 10 week (mouse)1067335830111735905Mouse
11353832Pcholq4_mplasma cholesterol QTL 4 (mouse)1073987216125515907Mouse
1357779Tesq3_mtestis weight QTL 3 (mouse)Not determined1084079650122041528Mouse
11059553Lmr32d_mleishmaniasis resistance 32d (mouse)1082309418116309657Mouse
11059554Lmr32e_mleishmaniasis resistance 32e (mouse)1082309418116309657Mouse
11059555Lmr32f_mleishmaniasis resistance 32f (mouse)1082309418116309657Mouse
26884426Cvht1_mcranial vault height 1, 5 week (mouse)1024675898121035905Mouse
26884424Zlq9_mzygomatic length QTL 9, 16 week (mouse)1063935779115935905Mouse
1357632Vtbt9_mvertebral trabecular bone trait 9 (mouse)Not determined1075338568109338767Mouse
26884430Zlq5_mzygomatic length QTL 5, 10 week (mouse)1067835830124835905Mouse
11353843Gluq1_mblood glucose QTL 1 (mouse)1073987216125515907Mouse
1301502Eae17_msusceptibility to experimental allergic encephalomyelitis 17 (mouse)Not determined105109149085091639Mouse
10043881Adip24_madiposity 24 (mouse)Not determined1082392803116392952Mouse
1558757Eae34_mexperimental allergic encephalomyelitis susceptibility 34 (mouse)Not determined1021408154114217230Mouse
4141387Lgaq5_mlate growth adjusted QTL 5 (mouse)Not determined84079650122041528Mouse
11059550Lmr32a_mleishmaniasis resistance 32a (mouse)1082309418116309657Mouse
11059551Lmr32b_mleishmaniasis resistance 32b (mouse)1082309418116309657Mouse
26884450Sklq15_mskull length QTL 15, 16 week (mouse)1059335822122335905Mouse
4141382Ssrq4_mstress response QTL 4 (mouse)Not determined8249093890856102Mouse
1301737Insq9_minsulin QTL 9 (mouse)Not determined106549093899491121Mouse
27095911Pglq15_mpelvic girdle length QTL 15, 16 week (mouse)1039175996129635869Mouse
1300975Fembrs3_mfemur breaking strength 3 (mouse)Not determined1075338568109338767Mouse

Markers in Region
Rfx4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381084,756,228 - 84,756,337UniSTSGRCm38
MGSCv371084,218,973 - 84,219,082UniSTSGRCm37
Celera1086,730,320 - 86,730,429UniSTS
Cytogenetic Map10C1UniSTS
cM Map10 UniSTS
Rfx4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10C1UniSTS
Rfx4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10C1UniSTS
Rfx4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10C1UniSTS
Rfx4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10C1UniSTS
Rfx4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10C1UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001024918 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_027689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006514113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006514114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006514115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030245278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030245279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB086957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB089184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC122349 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC140228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AEKQ02025414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK016791 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK034131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK090309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK132673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY102010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY342003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB595996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138720 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GQ496603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GQ496604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000020226
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1084,674,012 - 84,708,366 (+)Ensembl
GRCm38.p6 Ensembl1084,838,148 - 84,872,502 (+)Ensembl
Ensembl Acc Id: ENSMUST00000060397   ⟹   ENSMUSP00000051107
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1084,591,926 - 84,742,008 (+)Ensembl
GRCm38.p6 Ensembl1084,756,062 - 84,906,144 (+)Ensembl
Ensembl Acc Id: ENSMUST00000095388   ⟹   ENSMUSP00000093035
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1084,674,012 - 84,742,402 (+)Ensembl
GRCm38.p6 Ensembl1084,838,148 - 84,906,538 (+)Ensembl
Ensembl Acc Id: ENSMUST00000165868
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1084,598,102 - 84,650,534 (+)Ensembl
GRCm38.p6 Ensembl1084,762,238 - 84,814,670 (+)Ensembl
Ensembl Acc Id: ENSMUST00000166696   ⟹   ENSMUSP00000128690
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1084,670,610 - 84,742,398 (+)Ensembl
GRCm38.p6 Ensembl1084,834,746 - 84,906,534 (+)Ensembl
Ensembl Acc Id: ENSMUST00000173479
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1084,598,102 - 84,650,534 (+)Ensembl
GRCm38.p6 Ensembl1084,762,238 - 84,814,670 (+)Ensembl
RefSeq Acc Id: NM_001024918   ⟹   NP_001020089
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391084,591,912 - 84,742,400 (+)NCBI
GRCm381084,756,048 - 84,906,536 (+)NCBI
MGSCv371084,218,793 - 84,369,283 (+)RGD
Celera1086,730,140 - 86,884,321 (+)RGD
cM Map10 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_027689   ⟹   NP_081965
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391084,674,012 - 84,742,402 (+)NCBI
GRCm381084,838,148 - 84,906,538 (+)NCBI
MGSCv371084,218,793 - 84,369,283 (+)RGD
Celera1086,730,140 - 86,884,321 (+)RGD
cM Map10 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006514113   ⟹   XP_006514176
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391084,595,229 - 84,742,399 (+)NCBI
GRCm381084,762,244 - 84,906,536 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006514114   ⟹   XP_006514177
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391084,598,018 - 84,742,399 (+)NCBI
GRCm381084,762,233 - 84,906,157 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006514115   ⟹   XP_006514178
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391084,592,499 - 84,742,399 (+)NCBI
GRCm381084,756,630 - 84,906,157 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030245278   ⟹   XP_030101138
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391084,591,895 - 84,742,399 (+)NCBI
GRCm381084,756,036 - 84,906,157 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030245279   ⟹   XP_030101139
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391084,593,888 - 84,742,399 (+)NCBI
GRCm381084,758,188 - 84,906,157 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001020089   ⟸   NM_001024918
- Peptide Label: isoform 1
- UniProtKB: Q8HWA6 (UniProtKB/Swiss-Prot),   Q76KT2 (UniProtKB/Swiss-Prot),   Q3V158 (UniProtKB/Swiss-Prot),   B2RS52 (UniProtKB/Swiss-Prot),   Q9D453 (UniProtKB/Swiss-Prot),   Q7TNK1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_081965   ⟸   NM_027689
- Peptide Label: isoform 2
- UniProtKB: Q7TNK1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006514178   ⟸   XM_006514115
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006514176   ⟸   XM_006514113
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006514177   ⟸   XM_006514114
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_030101138   ⟸   XM_030245278
- Peptide Label: isoform X3
RefSeq Acc Id: XP_030101139   ⟸   XM_030245279
- Peptide Label: isoform X4
Ensembl Acc Id: ENSMUSP00000128690   ⟸   ENSMUST00000166696
Ensembl Acc Id: ENSMUSP00000093035   ⟸   ENSMUST00000095388
Ensembl Acc Id: ENSMUSP00000051107   ⟸   ENSMUST00000060397

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q7TNK1-F1-model_v2 AlphaFold Q7TNK1 1-735 view protein structure

Promoters
RGD ID:6819804
Promoter ID:MM_KWN:5149
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:ENSMUST00000020226,   NM_027689
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361084,300,806 - 84,301,306 (+)MPROMDB
RGD ID:8672898
Promoter ID:EPDNEW_M14480
Type:initiation region
Name:Rfx4_1
Description:Mus musculus regulatory factor X, 4 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M14481  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381084,756,158 - 84,756,218EPDNEW
RGD ID:8672900
Promoter ID:EPDNEW_M14481
Type:initiation region
Name:Rfx4_2
Description:Mus musculus regulatory factor X, 4 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M14480  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381084,838,129 - 84,838,189EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1918387 AgrOrtholog
Ensembl Genes ENSMUSG00000020037 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000060397 ENTREZGENE
  ENSMUST00000060397.13 UniProtKB/Swiss-Prot
  ENSMUST00000095388 ENTREZGENE
  ENSMUST00000095388.5 UniProtKB/Swiss-Prot
  ENSMUST00000166696.9 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot
InterPro DNA-bd_RFX UniProtKB/Swiss-Prot
  RFX-like UniProtKB/Swiss-Prot
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot
  WH_DNA-bd_sf UniProtKB/Swiss-Prot
KEGG Report mmu:71137 UniProtKB/Swiss-Prot
MGD MGI:1918387 ENTREZGENE
NCBI Gene 71137 ENTREZGENE
PANTHER PTHR12619 UniProtKB/Swiss-Prot
  TRANSCRIPTION FACTOR RFX4 UniProtKB/Swiss-Prot
Pfam RFX_DNA_binding UniProtKB/Swiss-Prot
PhenoGen Rfx4 PhenoGen
PROSITE RFX_DBD UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46785 UniProtKB/Swiss-Prot
UniProt B2RS52 ENTREZGENE
  C8CTA4_MOUSE UniProtKB/TrEMBL
  Q3V158 ENTREZGENE
  Q76KT2 ENTREZGENE
  Q7TNK1 ENTREZGENE
  Q8HWA6 ENTREZGENE
  Q9D453 ENTREZGENE
  RFX4_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary B2RS52 UniProtKB/Swiss-Prot
  Q3V158 UniProtKB/Swiss-Prot
  Q76KT2 UniProtKB/Swiss-Prot
  Q8HWA6 UniProtKB/Swiss-Prot
  Q9D453 UniProtKB/Swiss-Prot