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Aliases for RFX4 Gene

Aliases for RFX4 Gene

  • Regulatory Factor X, 4 (Influences HLA Class II Expression) 2 3
  • Testis Development Protein NYD-SP10 3 4
  • Winged-Helix Transcription Factor RFX4 3
  • Transcription Factor RFX4 3
  • Regulatory Factor X 4 4
  • NYD-SP10 3

External Ids for RFX4 Gene

Previous GeneCards Identifiers for RFX4 Gene

  • GC12P106105
  • GC12P106875
  • GC12P105497
  • GC12P105479
  • GC12P106976
  • GC12P104037

Summaries for RFX4 Gene

Entrez Gene Summary for RFX4 Gene

  • This gene is a member of the regulatory factor X gene family, which encodes transcription factors that contain a highly-conserved winged helix DNA binding domain. The protein encoded by this gene is structurally related to regulatory factors X1, X2, X3, and X5. It has been shown to interact with itself as well as with regulatory factors X2 and X3, but it does not interact with regulatory factor X1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2011]

GeneCards Summary for RFX4 Gene

RFX4 (Regulatory Factor X, 4 (Influences HLA Class II Expression)) is a Protein Coding gene. Among its related pathways are Transcriptional Regulatory Network in Embryonic Stem Cell. GO annotations related to this gene include chromatin binding. An important paralog of this gene is RFX3.

UniProtKB/Swiss-Prot for RFX4 Gene

  • May activate transcription by interacting directly with the X-box.

Gene Wiki entry for RFX4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RFX4 Gene

Genomics for RFX4 Gene

Regulatory Elements for RFX4 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for RFX4 Gene

Start:
106,582,907 bp from pter
End:
106,762,804 bp from pter
Size:
179,898 bases
Orientation:
Plus strand

Genomic View for RFX4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RFX4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RFX4 Gene

Proteins for RFX4 Gene

  • Protein details for RFX4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q33E94-RFX4_HUMAN
    Recommended name:
    Transcription factor RFX4
    Protein Accession:
    Q33E94
    Secondary Accessions:
    • A8K5Y0
    • B2RDW4
    • Q33DW6
    • Q33DW7
    • Q33E95
    • Q6YM53
    • Q8MHQ1
    • Q8NC78
    • Q8NDF9
    • Q8SNA1
    • Q96S80
    • Q9BXI0

    Protein attributes for RFX4 Gene

    Size:
    735 amino acids
    Molecular mass:
    83368 Da
    Quaternary structure:
    • Homodimer. Heterodimer with RFX2 and RFX3. Binds DNA
    SequenceCaution:
    • Sequence=BAB59001.1; Type=Miscellaneous discrepancy; Note=Probable intron retention.; Evidence={ECO:0000305}; Sequence=BAC11288.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAE48237.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAE48238.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for RFX4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RFX4 Gene

Proteomics data for RFX4 Gene at MOPED

Post-translational modifications for RFX4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

No data available for DME Specific Peptides for RFX4 Gene

Domains for RFX4 Gene

Protein Domains for RFX4 Gene

InterPro:
Blocks:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q33E94

UniProtKB/Swiss-Prot:

RFX4_HUMAN :
  • Q33E94
Domain:
  • Contains 1 RFX-type winged-helix DNA-binding domain.
Family:
  • Belongs to the RFX family.
genes like me logo Genes that share domains with RFX4: view

No data available for Gene Families for RFX4 Gene

Function for RFX4 Gene

Molecular function for RFX4 Gene

UniProtKB/Swiss-Prot Function:
May activate transcription by interacting directly with the X-box.

Gene Ontology (GO) - Molecular Function for RFX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IDA 16893423
GO:0001077 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription IDA 16893423
GO:0003677 DNA binding --
GO:0003682 chromatin binding IEA --
GO:0003700 sequence-specific DNA binding transcription factor activity IBA --
genes like me logo Genes that share ontologies with RFX4: view

Phenotypes for RFX4 Gene

MGI mutant phenotypes for RFX4:
inferred from 1 alleles
GenomeRNAi human phenotypes for RFX4:
genes like me logo Genes that share phenotypes with RFX4: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for RFX4 Gene

Localization for RFX4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RFX4 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RFX4 Gene COMPARTMENTS Subcellular localization image for RFX4 gene
Compartment Confidence
nucleus 3
cytosol 2

Gene Ontology (GO) - Cellular Components for RFX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
genes like me logo Genes that share ontologies with RFX4: view

Pathways for RFX4 Gene

genes like me logo Genes that share pathways with RFX4: view

Pathways by source for RFX4 Gene

Gene Ontology (GO) - Biological Process for RFX4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated --
GO:0006357 regulation of transcription from RNA polymerase II promoter IBA --
GO:0021516 dorsal spinal cord development IEA --
GO:0021537 telencephalon development IEA --
genes like me logo Genes that share ontologies with RFX4: view

Transcripts for RFX4 Gene

Unigene Clusters for RFX4 Gene

Regulatory factor X, 4 (influences HLA class II expression):
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RFX4

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RFX4 Gene

No ASD Table

Relevant External Links for RFX4 Gene

GeneLoc Exon Structure for
RFX4
ECgene alternative splicing isoforms for
RFX4

Expression for RFX4 Gene

mRNA expression in normal human tissues for RFX4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RFX4 Gene

This gene is overexpressed in Testis (10.5), Brain - Caudate (basal ganglia) (5.0), Brain - Nucleus accumbens (basal ganglia) (4.7), and Brain - Amygdala (4.3).

Protein differential expression in normal tissues for RFX4 Gene

This gene is overexpressed in Testis (42.0) and Ovary (27.0).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for RFX4 Gene

SOURCE GeneReport for Unigene cluster for RFX4 Gene Hs.388827

mRNA Expression by UniProt/SwissProt for RFX4 Gene

Q33E94-RFX4_HUMAN
Tissue specificity: Isoform 4 is testis-specific. Isoform 1 is expressed in brain and gliomas. Isoform 2 and isoform 3 are testis-specific (at protein level). Isoform 1 is expressed in brain (at protein level). Isoform 3 is expressed at a higher level in adult testes and ejaculated spematozoa than in fetal testes.
genes like me logo Genes that share expressions with RFX4: view

Expression partners for RFX4 Gene

In Situ Assay Products

Orthologs for RFX4 Gene

This gene was present in the common ancestor of animals.

Orthologs for RFX4 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RFX4 35
  • 92.56 (n)
  • 98.52 (a)
RFX4 36
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RFX4 35
  • 93.7 (n)
  • 98.64 (a)
RFX4 36
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rfx4 35
  • 90.39 (n)
  • 97.14 (a)
Rfx4 16
Rfx4 36
  • 96 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia RFX4 35
  • 99.77 (n)
  • 100 (a)
RFX4 36
  • 99 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RFX4 36
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RFX4 36
  • 98 (a)
OneToOne
chicken
(Gallus gallus)
Aves RFX4 35
  • 83.66 (n)
  • 95.56 (a)
RFX4 36
  • 94 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RFX4 36
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rfx4 35
  • 75.48 (n)
  • 84.06 (a)
Str.4920 35
zebrafish
(Danio rerio)
Actinopterygii Dr.20543 35
rfx4 35
  • 75.26 (n)
  • 84.58 (a)
rfx4 36
  • 83 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea daf-19 36
  • 21 (a)
OneToMany
Species with no ortholog for RFX4:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RFX4 Gene

ENSEMBL:
Gene Tree for RFX4 (if available)
TreeFam:
Gene Tree for RFX4 (if available)

Paralogs for RFX4 Gene

Paralogs for RFX4 Gene

Selected SIMAP similar genes for RFX4 Gene using alignment to 8 proteins:

genes like me logo Genes that share paralogs with RFX4: view

Variants for RFX4 Gene

Sequence variations from dbSNP and Humsavar for RFX4 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
VAR_037873 -
VAR_057152 -

Structural Variations from Database of Genomic Variants (DGV) for RFX4 Gene

Variant ID Type Subtype PubMed ID
nsv832511 CNV Gain 17160897
nsv522964 CNV Loss 19592680
nsv9005 CNV Gain 18304495
nsv899505 CNV Gain 21882294
esv990753 CNV Insertion 20482838
esv269609 CNV Insertion 20981092

Relevant External Links for RFX4 Gene

HapMap Linkage Disequilibrium report
RFX4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RFX4 Gene

Disorders for RFX4 Gene

(1) University of Copenhagen DISEASES for RFX4 Gene

Relevant External Links for RFX4

Genetic Association Database (GAD)
RFX4
Human Genome Epidemiology (HuGE) Navigator
RFX4
genes like me logo Genes that share disorders with RFX4: view

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , Novoseek inferred disease relationships and Genatlas for RFX4 Gene

Publications for RFX4 Gene

  1. Human regulatory factor X 4 (RFX4) is a testis-specific dimeric DNA- binding protein that cooperates with other human RFX members. (PMID: 11682486) Morotomi-Yano K. … Miki Y. (J. Biol. Chem. 2002) 2 3 4 23
  2. Identification of a novel substrate for tyrosine kinase in human testes. (PMID: 16193984) Huang X. … Sha J. (J. Nanosci. Nanotechnol. 2005) 3 4 23
  3. Identification of glioma-specific RFX4-E and -F isoforms and humoral immune response in patients. (PMID: 16271074) Matsushita H. … Nakayama E. (Cancer Sci. 2005) 3 4 23
  4. Identification of potential target genes for RFX4_v3, a transcription factor critical for brain development. (PMID: 16893423) Zhang D. … Blackshear P.J. (J. Neurochem. 2006) 3 23
  5. RFX proteins, a novel family of DNA binding proteins conserved in the eukaryotic kingdom. (PMID: 8600444) Emery P. … Reith W. (Nucleic Acids Res. 1996) 2 3

Products for RFX4 Gene

Sources for RFX4 Gene

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