Rfx4 MGI Mouse Gene Detail - MGI:1918387 - regulatory factor X, 4 (influences HLA class II expression)

Rfx4 Gene Detail

Symbol

Rfx4
Name

regulatory factor X, 4 (influences HLA class II expression)
Synonyms

4933412G19Rik

Feature Type

protein coding gene
IDs

MGI:1918387
NCBI Gene: 71137
Gene Overview

MyGene.info: RFX4
Alliance

gene page

Sequence Map

Chr10:84756062-84906538 bp, + strand
From VEGA annotation of GRCm38

Mouse Genome Browser
Download
Sequence

150477 bp ± kb flank
Genome Browsers

VEGA | Ensembl | UCSC | NCBI

Genetic Map

Chromosome 10, 41.63 cM, cytoband C1
Mapping Data

3 experiments

Human Ortholog

RFX4, regulatory factor X4

Vertebrate Orthologs

9

Human Ortholog

RFX4, regulatory factor X4
Orthology source: HomoloGene, HGNC
Synonyms

NYD-SP10
Links

HGNC:9985

NCBI Gene ID: 5992

neXtProt AC: NX_Q33E94

UniProt: Q33E94
Chr Location

12q23.3; chr12:106582907-106762804 (+) GRCh38.p7

HomoloGene

Vertebrate Homology Class 31119
1 human;1 mouse;1 chimpanzee;1 cattle;1 dog;1 chicken;1 zebrafish;1 frog, western clawed;1 macaque, rhesus
HCOP

human homology predictions: RFX4
Gene Tree

Rfx4

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Phenotype Summary

18 phenotypes from 2 alleles in 3 genetic backgrounds
17 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

25
Chemically induced (ENU)

1
Chemically induced (other)

1
Gene trapped

19
Targeted

3
Transgenic

1
Genomic Mutations

1 involving Rfx4
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

37 strains or lines available

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.

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All GO Annotations

24
GO References

8

External Resources

FuncBase

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	receptor binding	RNA binding	transcription	transferase	transporter

Biological Process

nucleic acid-templated transcription	carbohydrate derivative metabolism	cell death	cell differentiation	cell proliferation	cellular component organization	establishment of localization	homeostatic process	immune system process	lipid metabolic process	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

262
Tissues

107
cDNA Data

31
Literature Summary

15

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA RFX4

Xenbase rfx4

ZFIN rfx4

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Rfx4 interacts with 270 markers (Mir1a-1, Mir1a-2, Mir1b, ...) View All

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All Sequences

47
RefSeq

10
UniProt

2
CCDS

CCDS24082.1, CCDS24083.1
UniGene

79070

			Length	Strain/Species	Flank
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

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SNPs within 2kb

761 from dbSNP Build 142

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UniProt

2 Sequences
Protein Ontology

PR:000013926 transcription factor RFX4

(term hierarchy)
InterPro Domains

IPR003150 DNA-binding RFX-type winged-helix domain

IPR036390 Winged helix DNA-binding domain superfamily

IPR036388 Winged helix-like DNA-binding domain superfamily

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All nucleic 39

cDNA 32

Primer pair 7

Microarray probesets 3

Summaries

All 53

Developmental Gene Expression 15

Gene Ontology 8

Phenotypes 17
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

J:255626 Xu P, et al., Conditional ablation of the RFX4 isoform 1 transcription factor: Allele dosage effects on brain phenotype. PLoS One. 2018;13(1):e0190561

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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