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

Gene Tree: Rfx4

Human
homologs

Human Homolog		RFX4, regulatory factor X, 4 (influences HLA class II expression)
NCBI Gene ID		5992
neXtProt AC		NX_Q33E94
Human Synonyms		NYD-SP10
Human Chr (Location)		12q24; chr12:106582907-106762804 (+)  GRCh38

Mutations,
alleles, and
phenotypes

All mutations/alleles(23) : Chemically induced (ENU)(1) Gene trapped(19) Targeted(2) Transgenic(1)
Incidental mutations (data from Mutagenetix , APF )
 

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, ...)

View All

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 Type	Results
RNA in situ	186
Northern blot	39
RT-PCR	37

cDNA source data(31)
External Resources: Allen Institute   GEO   Expression Atlas

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	TC1639446, TC1622461, TC1581062, TC1607860
DoTS	DT.94291248, DT.91348965, DT.50315331, DT.110611765, DT.97356894, DT.97344396
NIA Mouse Gene Index	U011827
Consensus CDS Project	CCDS24082.1, CCDS24083.1
International Mouse Knockout Project Status	Rfx4

Sequences

Length	Strain/Species
genomic	OTTMUSG00000037132	VEGA Gene Model | MGI Sequence Detail	150477	C57BL/6J
transcript	OTTMUST00000095604	VEGA | MGI Sequence Detail	3534	Not Applicable
polypeptide	OTTMUSP00000053351	VEGA | MGI Sequence Detail	735	Not Applicable

All sequences(59) RefSeq(10) UniProt(3)

Polymorphisms

SNPs within 2kb(772 from dbSNP Build 137)

Protein-related
information

Resource	ID	Description
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(51)