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Aliases for RUFY4 Gene

Aliases for RUFY4 Gene

  • RUN And FYVE Domain Containing 4 2 3 5
  • RUN And FYVE Domain-Containing Protein 4 3
  • ZFYVE31 3

External Ids for RUFY4 Gene

Previous GeneCards Identifiers for RUFY4 Gene

  • GC02P218607
  • GC02P218899
  • GC02P210753

Summaries for RUFY4 Gene

GeneCards Summary for RUFY4 Gene

RUFY4 (RUN And FYVE Domain Containing 4) is a Protein Coding gene. An important paralog of this gene is FYCO1.

Additional gene information for RUFY4 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RUFY4 Gene

Genomics for RUFY4 Gene

GeneHancer (GH) Regulatory Elements for RUFY4 Gene

Promoters and enhancers for RUFY4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02I218034 Promoter/Enhancer 1.5 Ensembl ENCODE dbSUPER 558.3 -0.1 -54 0.2 HDGF ELF3 CTCF ZNF449 KLF5 ZNF48 RAD21 SMC3 ZNF143 ZNF444 RUFY4 TNS1
GH02I217897 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.1 -132.4 -132430 9.9 PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF143 FOS TNS1 MIR6809 SLC11A1 LOC105373878 RUFY4 PNKD ARPC2 TMBIM1 GC02P217941
GH02I217992 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 12 -39.6 -39610 5.5 CTCF ZBTB21 JUN ZNF48 RAD21 RFX5 SCRT2 ZNF143 SMC3 PRDM10 CNOT9 USP37 RUFY4 TNS1 LOC105373878
GH02I217987 Enhancer 1.3 Ensembl ENCODE dbSUPER 12 -45.9 -45939 2.8 CLOCK NFIB NEUROD1 SIN3A YBX1 ZNF2 ZBTB7B ZNF48 RAD21 ZEB1 AAMP CNOT9 RNF25 RUFY4 STK36 BCS1L USP37 LOC105373878 TNS1
GH02I217789 Enhancer 1.3 Ensembl ENCODE dbSUPER 11.4 -244.8 -244750 2.1 ELF3 RB1 ARID4B SIN3A ZNF2 KLF5 THRB ZNF48 ZSCAN9 RAD21 RUFY4 TNS1 LOC105373878 DIRC3 GC02M217800 RPL7L1P9
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RUFY4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RUFY4 gene promoter:

Genomic Locations for RUFY4 Gene

Genomic Locations for RUFY4 Gene
chr2:218,034,934-218,090,625
(GRCh38/hg38)
Size:
55,692 bases
Orientation:
Plus strand
chr2:218,899,657-218,955,304
(GRCh37/hg19)

Genomic View for RUFY4 Gene

Genes around RUFY4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RUFY4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RUFY4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RUFY4 Gene

Proteins for RUFY4 Gene

  • Protein details for RUFY4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZNE9-RUFY4_HUMAN
    Recommended name:
    RUN and FYVE domain-containing protein 4
    Protein Accession:
    Q6ZNE9
    Secondary Accessions:
    • Q6ZR96

    Protein attributes for RUFY4 Gene

    Size:
    571 amino acids
    Molecular mass:
    64350 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAI13713.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC87417.1; Type=Erroneous translation; Note=Wrong choice of CDS.; Evidence={ECO:0000305};

    Alternative splice isoforms for RUFY4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RUFY4 Gene

Post-translational modifications for RUFY4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RUFY4 Gene

No data available for DME Specific Peptides for RUFY4 Gene

Domains & Families for RUFY4 Gene

Gene Families for RUFY4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for RUFY4 Gene

Suggested Antigen Peptide Sequences for RUFY4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RUFY4: view

No data available for UniProtKB/Swiss-Prot for RUFY4 Gene

Function for RUFY4 Gene

Phenotypes From GWAS Catalog for RUFY4 Gene

Gene Ontology (GO) - Molecular Function for RUFY4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with RUFY4: view
genes like me logo Genes that share phenotypes with RUFY4: view

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RUFY4 Gene

Localization for RUFY4 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RUFY4 gene
Compartment Confidence
nucleus 3
cytosol 2
mitochondrion 1
lysosome 1
endosome 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for RUFY4 Gene

Pathways & Interactions for RUFY4 Gene

SuperPathways for RUFY4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RUFY4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RUFY4 Gene

Drugs & Compounds for RUFY4 Gene

No Compound Related Data Available

Transcripts for RUFY4 Gene

mRNA/cDNA for RUFY4 Gene

Unigene Clusters for RUFY4 Gene

RUN and FYVE domain containing 4:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RUFY4 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13 ^ 14 ^ 15a · 15b
SP1: - - - -
SP2: -
SP3: - -
SP4: -
SP5: - - -
SP6:
SP7: - - -
SP8: - -

Relevant External Links for RUFY4 Gene

GeneLoc Exon Structure for
RUFY4
ECgene alternative splicing isoforms for
RUFY4

Expression for RUFY4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RUFY4 Gene

mRNA differential expression in normal tissues according to GTEx for RUFY4 Gene

This gene is overexpressed in Spleen (x5.2).

Protein differential expression in normal tissues from HIPED for RUFY4 Gene

This gene is overexpressed in Plasma (42.1) and Breast (25.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RUFY4 Gene



Protein tissue co-expression partners for RUFY4 Gene

NURSA nuclear receptor signaling pathways regulating expression of RUFY4 Gene:

RUFY4

SOURCE GeneReport for Unigene cluster for RUFY4 Gene:

Hs.570069
genes like me logo Genes that share expression patterns with RUFY4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for RUFY4 Gene

Orthologs for RUFY4 Gene

This gene was present in the common ancestor of animals.

Orthologs for RUFY4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RUFY4 33 34
  • 97.57 (n)
cow
(Bos Taurus)
Mammalia RUFY4 33
  • 81.52 (n)
MGC157327 34
  • 62 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RUFY4 33 34
  • 79.58 (n)
rat
(Rattus norvegicus)
Mammalia Rufy4 33
  • 74.85 (n)
mouse
(Mus musculus)
Mammalia Rufy4 33 16 34
  • 74.32 (n)
oppossum
(Monodelphis domestica)
Mammalia RUFY4 34
  • 37 (a)
OneToOne
chicken
(Gallus gallus)
Aves RUFY4 34 33
  • 65.92 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RUFY4 34
  • 15 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG4030 34
  • 6 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rabn-5 34
  • 11 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 14 (a)
OneToMany
Species where no ortholog for RUFY4 was found in the sources mined by GeneCards:
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • zebrafish (Danio rerio)

Evolution for RUFY4 Gene

ENSEMBL:
Gene Tree for RUFY4 (if available)
TreeFam:
Gene Tree for RUFY4 (if available)

Paralogs for RUFY4 Gene

Paralogs for RUFY4 Gene

genes like me logo Genes that share paralogs with RUFY4: view

Variants for RUFY4 Gene

Sequence variations from dbSNP and Humsavar for RUFY4 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000026092 -- 218,063,616(+) A/T genic_upstream_transcript_variant, intron_variant
rs1000085395 -- 218,072,321(+) C/T intron_variant
rs1000120793 -- 218,077,085(+) G/A/T intron_variant
rs1000165553 -- 218,047,208(+) C/A genic_upstream_transcript_variant, intron_variant
rs1000207270 -- 218,088,066(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RUFY4 Gene

Variant ID Type Subtype PubMed ID
esv2494137 CNV insertion 19546169
esv2721477 CNV deletion 23290073
esv3445788 CNV insertion 20981092
nsv3163 CNV insertion 18451855
nsv512786 CNV insertion 21212237
nsv584488 CNV loss 21841781
nsv834541 CNV loss 17160897
nsv954835 CNV deletion 24416366

Variation tolerance for RUFY4 Gene

Gene Damage Index Score: 4.22; 62.17% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RUFY4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RUFY4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RUFY4 Gene

Disorders for RUFY4 Gene

Additional Disease Information for RUFY4

No disorders were found for RUFY4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RUFY4 Gene

Publications for RUFY4 Gene

  1. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 58
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 58
  5. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 4 58

Products for RUFY4 Gene

Sources for RUFY4 Gene

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