Rfx5
Gene Detail

Symbol Name ID

Rfx5 regulatory factor X, 5 (influences HLA class II expression) MGI:1858421

Feature Type

protein coding gene

Genetic Map

Chromosome 3

40.74 cM, cytoband F2
Detailed Genetic Map ± 1 cM


Mapping data(3)

Sequence Map

Chr3:94954075-94961561 bp, + strand From VEGA annotation of GRCm38   7487 bp   ±  kb flank VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer

Mouse Genome Browser

Vertebrate homology

HomoloGene:388  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 2 chicken

Gene Tree: Rfx5

Human homologs

Human Homolog		RFX5, regulatory factor X, 5 (influences HLA class II expression)
NCBI Gene ID		5993
neXtProt AC		NX_P48382
Human Chr (Location)		1q21; chr1:151313116-151319769 (-)  GRCh37.p10
Disease Associations		(1) Diseases Associated with Human RFX5

Alleles and phenotypes

All alleles(14) : Targeted(7) Gene trapped(7)
 

Homozygous null mice have absent or decreased expression of MHC-II complexes on antigen presenting cells, which leads to reduced numbers of CD4⁺ thymocytes and T cells.

 

Gene Ontology (GO) classifications

All GO classifications: (7 annotations)

Process	negative regulation of transcription from RNA polymerase II promoter, regulation of transcription, DNA-dependent, ...
Component	nucleus
Function	DNA binding

External Resources: FuncBase

Expression

Literature Summary: (7 records)
Data Summary: Results (148)    Tissues (78)    Images (24)
Theiler Stages: 2, 3, 4, 5, 15, 17, 19, 21, 23, 28

Assay Type	Results
RNA in situ	133
RT-PCR	15

cDNA source data(14)
External Resources: Allen Institute   GEO   ArrayExpress

Molecular reagents

All nucleic(16) cDNA(14) Primer pair(2)
Microarray probesets(3)

Other database links

VEGA Gene Model	OTTMUSG00000019670 (Evidence)
Ensembl Gene Model	ENSMUSG00000005774 (Evidence)
Entrez Gene	53970 (Evidence)
NIA Mouse Gene Index	U003551
Consensus CDS Project	CCDS17598.1
International Mouse Knockout Project Status	Rfx5

Sequences

Length	Strain/Species
genomic	OTTMUSG00000019670	VEGA Gene Model | MGI Sequence Detail	7487	C57BL/6J
transcript	OTTMUST00000055675	VEGA | MGI Sequence Detail	2355	Not Applicable
polypeptide	OTTMUSP00000026691	VEGA | MGI Sequence Detail	658	Not Applicable

All sequences(92) RefSeq(2) UniProt(9)

Polymorphisms

SNPs(25 from dbSNP Build 128)

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:000013927	DNA-binding protein RFX5

References

(Earliest) J:67941 Clausen BE, et al., Residual MHC class II expression on mature dendritic cells and activated B cells in RFX5-deficient mice. Immunity. 1998 Feb;8(2):143-55
(Latest) J:173534 Skarnes WC, et al., A conditional knockout resource for the genome-wide study of mouse gene function. Nature. 2011 Jun 16;474(7351):337-42
All references(39)