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Rfx4
Gene Detail
Symbol

Name
ID
Rfx4
regulatory factor X, 4 (influences HLA class II expression)
MGI:1918387
Synonyms
4933412G19Rik
Feature Type
protein coding gene
Genetic Map
Chromosome 10
41.63 cM, cytoband C1
Detailed Genetic Map ± 1 cM


Mapping data(3)
Sequence Map
Chr10:84756062-84906538 bp, + strand
From VEGA annotation of GRCm38

  150477 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:31119  Vertebrate Homology Class
1 human; 1 mouse; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog; 1 zebrafish

HCOP human homology predictions: RFX4
Gene Tree: Rfx4

Human
homologs
RFX4, regulatory factor X, 4 (influences HLA class II expression)
Orthology source: HGNC, HomoloGene

IDs:
NCBI Gene ID: 5992
neXtProt AC: NX_Q33E94

Human Synonyms: NYD-SP10

Human Chr (Location): 12q24; chr12:106582907-106762804 (+)  GRCh38.p2

Mutations,
alleles, and
phenotypes
All mutations/alleles(24) : Chemically induced (ENU)(1) Gene trapped(19) Targeted(3) Transgenic(1)
Incidental mutations (data from Mutagenetix , APF , CvDC )
 
Inactivating null allele or homozygous point mutation alleles exhibit missing dorsal midline structure of the cortex including the subcommissural organ and neonatal lethality. Heterozygous null mice have congenital hydrocephalus.
 
Interactions
Rfx4 interacts with 270 markers (Mir1a-1, Mir1a-2, Mir1b, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (24 annotations)
Process cerebellar cortex morphogenesis, cilium assembly, ...
Component nucleus
Function chromatin binding, DNA binding, ...
External Resources: FuncBase
Expression
Literature Summary: (14 records)
Data Summary: Results (262)    Tissues (107)    Images (54)    Tissue x Stage Matrix (view)
Assay TypeResults
RNA in situ 186
Northern blot 39
RT-PCR 37
cDNA source data(31)
Other mouse links: Allen Institute   GEO   Expression Atlas
Other vertebrate links: GEISHA RFX4 ; Xenbase LOC100496135 ; ZFIN rfx4    NEW 
Molecular
reagents
All nucleic(39) cDNA(32) Primer pair(7)
Microarray probesets(3)
Other database
links
VEGA Gene Model OTTMUSG00000037132 (Evidence)
Ensembl Gene Model ENSMUSG00000020037 (Evidence)
Entrez Gene 71137 (Evidence)
UniGene 79070
DFCI TC1581062, TC1607860, TC1622461, TC1639446
DoTS DT.110611765, DT.50315331, DT.91348965, DT.94291248, DT.97344396, DT.97356894
NIA Mouse Gene Index U011827
Consensus CDS Project CCDS24082.1, CCDS24083.1
International Mouse Phenotyping Consortium Status Rfx4
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000037132 VEGA Gene Model | MGI Sequence Detail 150477 C57BL/6J ±  kb
transcript OTTMUST00000095604 VEGA | MGI Sequence Detail 3534 Not Applicable 
polypeptide OTTMUSP00000053351 VEGA | MGI Sequence Detail 735 Not Applicable 

For the selected sequences
All sequences(60) RefSeq(12) UniProt(2)
Polymorphisms
SNPs within 2kb(772 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR003150 DNA-binding RFX-type winged-helix domain
InterPro IPR011991 Winged helix-turn-helix DNA-binding domain
Protein Ontology PR:000013926 transcription factor RFX4
References
(Earliest) J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
(Latest) J:209144 Bae BI, et al., Evolutionarily dynamic alternative splicing of GPR56 regulates regional cerebral cortical patterning. Science. 2014 Feb 14;343(6172):764-8
All references(50)

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
08/18/2015
MGI 6.0
The Jackson Laboratory