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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

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, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (19 annotations)
Process cerebellar cortex morphogenesis, cilium assembly, ...
Component nucleus
Function chromatin binding, DNA binding, ...
External Resources: FuncBase
Expression
Literature Summary: (12 records)
Data Summary: Results (262)    Tissues (107)    Images (54)
Theiler Stages: 2, 3, 11, 13, 15, 17, 19, 20, 21, 22, 23, 24, 26, 27, 28
Assay TypeResults
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 ModelOTTMUSG00000037132 (Evidence)
Ensembl Gene ModelENSMUSG00000020037 (Evidence)
Entrez Gene71137 (Evidence)
UniGene79070
DFCITC1581062, TC1607860, TC1622461, TC1639446
DoTSDT.110611765, DT.50315331, DT.91348965, DT.94291248, DT.97344396, DT.97356894
NIA Mouse Gene IndexU011827
Consensus CDS ProjectCCDS24082.1, CCDS24083.1
International Mouse Knockout Project StatusRfx4
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(58) RefSeq(10) 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:203028 Hasenpusch-Theil K, et al., Transcriptional analysis of Gli3 mutants identifies Wnt target genes in the developing hippocampus. Cereb Cortex. 2012 Dec;22(12):2878-93
All references(47)

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
08/26/2014
MGI 5.19
The Jackson Laboratory