Aliases for YIPF4 Gene

Aliases for YIPF4 Gene

  • Yip1 Domain Family Member 4 2 3 5
  • YIP1 Family Member 4 3 4
  • Protein YIPF4 3 4
  • Putative Protein Product Of Nbla11189 3
  • Yip1 Domain Family, Member 4 2
  • Nbla11189 3
  • FinGER4 3

External Ids for YIPF4 Gene

Previous GeneCards Identifiers for YIPF4 Gene

  • GC02P032416
  • GC02P032356
  • GC02P032502
  • GC02P032242
  • GC02P032278

Summaries for YIPF4 Gene

GeneCards Summary for YIPF4 Gene

YIPF4 (Yip1 Domain Family Member 4) is a Protein Coding gene. Diseases associated with YIPF4 include Skin Sarcoidosis. An important paralog of this gene is YIPF5.

UniProtKB/Swiss-Prot Summary for YIPF4 Gene

Gene Wiki entry for YIPF4 Gene

Additional gene information for YIPF4 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for YIPF4 Gene

Genomics for YIPF4 Gene

GeneHancer (GH) Regulatory Elements for YIPF4 Gene

Promoters and enhancers for YIPF4 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
GH02J032277 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 500.7 +0.5 548 2.7 FOXK2 ZBTB40 ZNF217 EP300 TCF12 POLR2G SP1 NCOR1 GTF2E2 PHF8 YIPF4 lnc-NLRC4-6 BIRC6 DDX50P1 RNU6-647P SLC30A6 TTC27 NLRC4 piR-43325-051
GH02J032825 Enhancer 0.9 Ensembl ENCODE 21.1 +547.7 547738 2.3 ZSCAN5C ZNF510 TRIM28 ZNF491 ZNF132 NFIC ZNF195 GATA3 ZNF184 SPI1 LINC00486 YIPF4 BIRC6 piR-48369-082
GH02J032328 Enhancer 1.1 Ensembl ENCODE 13 +51.4 51407 2.2 EP300 FOXK2 TCF12 POLR2G NCOR1 KDM6A TCF7 FOXA1 ZBTB25 TGIF2 piR-57133-331 YIPF4 TTC27 ENSG00000272754
GH02J031381 Enhancer 1.1 Ensembl ENCODE dbSUPER 4.2 -893.8 -893754 5.4 CTCF TCF12 JUND FOS REST POLR2A EP300 NFIC SMARCC1 FOSL2 lnc-SRD5A2-1 XDH YIPF4 piR-58883
GH02J031378 Enhancer 0.8 ENCODE dbSUPER 4.5 -898.9 -898933 1.6 FOXA2 NR2F2 FOS ZBTB33 JUND RAD21 RXRA MAX HNF4A REST piR-41306-141 piR-58883 YIPF4 XDH
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around YIPF4 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for YIPF4

Top Transcription factor binding sites by QIAGEN in the YIPF4 gene promoter:
  • c-Ets-1
  • CP2
  • HNF-4alpha1
  • MAZR
  • NF-kappaB
  • NF-kappaB1
  • POU3F2
  • POU3F2 (N-Oct-5a)
  • POU3F2 (N-Oct-5b)
  • RelA

Genomic Locations for YIPF4 Gene

Genomic Locations for YIPF4 Gene
chr2:32,277,889-32,316,594
(GRCh38/hg38)
Size:
38,706 bases
Orientation:
Plus strand
chr2:32,502,958-32,541,663
(GRCh37/hg19)
Size:
38,706 bases
Orientation:
Plus strand

Genomic View for YIPF4 Gene

Genes around YIPF4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
YIPF4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for YIPF4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YIPF4 Gene

Proteins for YIPF4 Gene

  • Protein details for YIPF4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BSR8-YIPF4_HUMAN
    Recommended name:
    Protein YIPF4
    Protein Accession:
    Q9BSR8

    Protein attributes for YIPF4 Gene

    Size:
    244 amino acids
    Molecular mass:
    27083 Da
    Quaternary structure:
    • Interacts with YIPF3 and YIPF5.
    • (Microbial infection) Interacts with human papillomavirus (HPV) E5 proteins.

neXtProt entry for YIPF4 Gene

Post-translational modifications for YIPF4 Gene

  • Ubiquitination at Lys47
  • Modification sites at PhosphoSitePlus

Other Protein References for YIPF4 Gene

No data available for DME Specific Peptides for YIPF4 Gene

Domains & Families for YIPF4 Gene

Gene Families for YIPF4 Gene

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

Protein Domains for YIPF4 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for YIPF4 Gene

GenScript: Design optimal peptide antigens:
  • YIP1 family member 4 (YIPF4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9BSR8

UniProtKB/Swiss-Prot:

YIPF4_HUMAN :
  • Belongs to the YIP1 family.
Family:
  • Belongs to the YIP1 family.
genes like me logo Genes that share domains with YIPF4: view

Function for YIPF4 Gene

Molecular function for YIPF4 Gene

UniProtKB/Swiss-Prot Function:
Involved in the maintenance of the Golgi structure.

Phenotypes From GWAS Catalog for YIPF4 Gene

Gene Ontology (GO) - Molecular Function for YIPF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with YIPF4: view
genes like me logo Genes that share phenotypes with YIPF4: view

Animal Model Products

  • Taconic Biosciences Mouse Models for YIPF4

CRISPR Products

miRNA for YIPF4 Gene

miRTarBase miRNAs that target YIPF4

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YIPF4 Gene

Localization for YIPF4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YIPF4 Gene

Golgi apparatus, cis-Golgi network membrane; Multi-pass membrane protein.

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 YIPF4 gene
Compartment Confidence
plasma membrane 5
endoplasmic reticulum 4
golgi apparatus 4
cytoskeleton 1
mitochondrion 1
nucleus 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (3)
  • Plasma membrane (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for YIPF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IDA --
GO:0005794 Golgi apparatus IDA,IEA --
GO:0005886 plasma membrane IDA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with YIPF4: view

Pathways & Interactions for YIPF4 Gene

PathCards logo

SuperPathways for YIPF4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YIPF4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for YIPF4 Gene

Drugs & Compounds for YIPF4 Gene

No Compound Related Data Available

Transcripts for YIPF4 Gene

mRNA/cDNA for YIPF4 Gene

1 REFSEQ mRNAs :
5 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for YIPF4 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c
SP1:
SP2: -
SP3: - - -
SP4: -
SP5: - -

Relevant External Links for YIPF4 Gene

GeneLoc Exon Structure for
YIPF4

Expression for YIPF4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for YIPF4 Gene

Protein differential expression in normal tissues from HIPED for YIPF4 Gene

This gene is overexpressed in Bone (20.5), Fetal testis (11.2), and Oral epithelium (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for YIPF4 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for YIPF4

SOURCE GeneReport for Unigene cluster for YIPF4 Gene:

Hs.468099

mRNA Expression by UniProt/SwissProt for YIPF4 Gene:

Q9BSR8-YIPF4_HUMAN
Tissue specificity: Expressed in keratinocytes (at protein level).

Evidence on tissue expression from TISSUES for YIPF4 Gene

  • Stomach(4.2)
  • Nervous system(3.5)
genes like me logo Genes that share expression patterns with YIPF4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for YIPF4 Gene

Orthologs for YIPF4 Gene

This gene was present in the common ancestor of animals.

Orthologs for YIPF4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia YIPF4 31 30
  • 99.73 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia YIPF4 31
  • 97 (a)
OneToOne
cow
(Bos Taurus)
Mammalia YIPF4 31 30
  • 96.11 (n)
OneToOne
dog
(Canis familiaris)
Mammalia YIPF4 31 30
  • 95.36 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia YIPF4 31
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Yipf4 17 31 30
  • 93.25 (n)
rat
(Rattus norvegicus)
Mammalia Yipf4 30
  • 93.1 (n)
chicken
(Gallus gallus)
Aves YIPF4 31 30
  • 85.06 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia YIPF4 31
  • 76 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.16552 30
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.13074 30
zebrafish
(Danio rerio)
Actinopterygii yipf4 31 30
  • 75 (n)
OneToOne
Dr.6134 30
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.3395 30
worm
(Caenorhabditis elegans)
Secernentea CELE_Y60A3A.19 30
  • 59.01 (n)
T08D2.6 31
  • 52 (a)
OneToMany
Y60A3A.19 31
  • 46 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6512 31
  • 56 (a)
OneToOne
Cin.1954 30
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.1954 30
Species where no ortholog for YIPF4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • wheat (Triticum aestivum)

Evolution for YIPF4 Gene

ENSEMBL:
Gene Tree for YIPF4 (if available)
TreeFam:
Gene Tree for YIPF4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for YIPF4: view image

Paralogs for YIPF4 Gene

Paralogs for YIPF4 Gene

genes like me logo Genes that share paralogs with YIPF4: view

Variants for YIPF4 Gene

Additional dbSNP identifiers (rs#s) for YIPF4 Gene

Structural Variations from Database of Genomic Variants (DGV) for YIPF4 Gene

Variant ID Type Subtype PubMed ID
dgv3748n100 CNV gain 25217958
esv2422335 CNV duplication 17116639
esv3590245 CNV gain 21293372
nsv819851 CNV loss 19587683

Variation tolerance for YIPF4 Gene

Residual Variation Intolerance Score: 34.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.25; 24.96% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for YIPF4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
YIPF4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for YIPF4 Gene

Disorders for YIPF4 Gene

MalaCards: The human disease database

(1) MalaCards diseases for YIPF4 Gene - From: DISEASES

Disorder Aliases PubMed IDs
skin sarcoidosis
  • cutaneous sarcoid
- elite association - COSMIC cancer census association via MalaCards
Search YIPF4 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for YIPF4

genes like me logo Genes that share disorders with YIPF4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for YIPF4 Gene

Publications for YIPF4 Gene

  1. YIP1 family member 4 (YIPF4) is a novel cellular binding partner of the papillomavirus E5 proteins. (PMID: 26235900) Müller M … Macdonald A (Scientific reports 2015) 2 3 4 54
  2. Characterization of YIPF3 and YIPF4, cis-Golgi Localizing Yip domain family proteins. (PMID: 21757827) Tanimoto K … Nakamura N (Cell structure and function 2011) 2 3 4 54
  3. Functional characterisation of the YIPF protein family in mammalian cells. (PMID: 27999994) Kranjc T … Simpson JC (Histochemistry and cell biology 2017) 3 4 54
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54

Products for YIPF4 Gene

Sources for YIPF4 Gene