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Aliases for YIPF3 Gene

Aliases for YIPF3 Gene

  • Yip1 Domain Family Member 3 2 3 5
  • Natural Killer Cell-Specific Antigen KLIP1 3 4
  • Yip1 Domain Family, Member 3 2 3
  • Killer Lineage Protein 1 3 4
  • C6orf109 3 4
  • KLIP1 3 4
  • Chromosome 6 Open Reading Frame 109 2
  • YIP1 Family Member 3 4
  • DJ337H4.3 3
  • FinGER3 3

External Ids for YIPF3 Gene

Previous HGNC Symbols for YIPF3 Gene

  • C6orf109

Previous GeneCards Identifiers for YIPF3 Gene

  • GC06M043588
  • GC06M043197

Summaries for YIPF3 Gene

GeneCards Summary for YIPF3 Gene

YIPF3 (Yip1 Domain Family Member 3) is a Protein Coding gene. Diseases associated with YIPF3 include Frasier Syndrome.

UniProtKB/Swiss-Prot for YIPF3 Gene

  • Involved in the maintenance of the Golgi structure. May play a role in hematopoiesis.

Gene Wiki entry for YIPF3 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for YIPF3 Gene

Genomics for YIPF3 Gene

Regulatory Elements for YIPF3 Gene

Enhancers for YIPF3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around YIPF3 on UCSC Golden Path with GeneCards custom track

Promoters for YIPF3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around YIPF3 on UCSC Golden Path with GeneCards custom track

Genomic Location for YIPF3 Gene

Chromosome:
6
Start:
43,511,827 bp from pter
End:
43,516,990 bp from pter
Size:
5,164 bases
Orientation:
Minus strand

Genomic View for YIPF3 Gene

Genes around YIPF3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
YIPF3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for YIPF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YIPF3 Gene

Proteins for YIPF3 Gene

  • Protein details for YIPF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9GZM5-YIPF3_HUMAN
    Recommended name:
    Protein YIPF3
    Protein Accession:
    Q9GZM5
    Secondary Accessions:
    • Q5JTD2
    • Q6FI85
    • Q8NI57
    • Q9NWE3
    • Q9Y3U9

    Protein attributes for YIPF3 Gene

    Size:
    350 amino acids
    Molecular mass:
    38248 Da
    Quaternary structure:
    • Interacts with YIPF4.
    SequenceCaution:
    • Sequence=CAI42626.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for YIPF3 Gene

Proteomics data for YIPF3 Gene at MOPED

Post-translational modifications for YIPF3 Gene

  • N-glycosylated in the ER (40 kDa form I), then O-glycosylated in the Golgi apparatus (46 kDa form II), the C-terminal lumenal region is later removed in the Golgi apparatus to produce a 36 kDa form III. O-glycosylated with core 1-like and core 2-like glycans. O-glycan heterogeneity at Thr-346: HexNAc (minor), HexHexNAc (major), Hex1HexNAc2 (minor), Hex2HexNAc2 (minor) and dHex1Hex2HexNAc2 (minor).
  • Ubiquitination at Lys 86, Lys 102, and Lys 141
  • Glycosylation at Thr 333, Thr 334, Asn 337, Thr 339, and Thr 346
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for YIPF3 Gene

Domains & Families for YIPF3 Gene

Gene Families for YIPF3 Gene

Protein Domains for YIPF3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for YIPF3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9GZM5

UniProtKB/Swiss-Prot:

YIPF3_HUMAN :
  • Belongs to the YIP1 family.
Family:
  • Belongs to the YIP1 family.
genes like me logo Genes that share domains with YIPF3: view

Function for YIPF3 Gene

Molecular function for YIPF3 Gene

UniProtKB/Swiss-Prot Function:
Involved in the maintenance of the Golgi structure. May play a role in hematopoiesis.
genes like me logo Genes that share phenotypes with YIPF3: view

Animal Model Products

miRNA for YIPF3 Gene

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YIPF3 Gene

Localization for YIPF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YIPF3 Gene

Cell membrane; Multi-pass membrane protein. Cytoplasm. Golgi apparatus, cis-Golgi network membrane; Multi-pass membrane protein. Note=Localization to the cytoplasm or to the cell membrane is developmentally and ontogenetically regulated.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for YIPF3 Gene COMPARTMENTS Subcellular localization image for YIPF3 gene
Compartment Confidence
golgi apparatus 5
nucleus 5
plasma membrane 5
peroxisome 1

Gene Ontology (GO) - Cellular Components for YIPF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005886 plasma membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0043231 intracellular membrane-bounded organelle IDA --
genes like me logo Genes that share ontologies with YIPF3: view

Pathways & Interactions for YIPF3 Gene

SuperPathways for YIPF3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YIPF3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for YIPF3 Gene

Drugs & Compounds for YIPF3 Gene

No Compound Related Data Available

Transcripts for YIPF3 Gene

Unigene Clusters for YIPF3 Gene

Yip1 domain family, member 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for YIPF3 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6a · 6b · 6c ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^
SP1: - - - - - - - -
SP2: - - - -
SP3: - - - - - -
SP4: - - - - - - - - -
SP5: - - - - - -
SP6: - - - - - - -
SP7: - - - - - - - - - -
SP8: - - - - -
SP9: - - - - - -
SP10: -
SP11: - - - -
SP12: - - - -
SP13: - - - - - - -
SP14: - - -
SP15: -

ExUns: 11a · 11b ^ 12
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:

Relevant External Links for YIPF3 Gene

GeneLoc Exon Structure for
YIPF3
ECgene alternative splicing isoforms for
YIPF3

Expression for YIPF3 Gene

mRNA expression in normal human tissues for YIPF3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for YIPF3 Gene

This gene is overexpressed in Nasal epithelium (25.2), Urine (20.1), and Cerebrospinal fluid (13.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for YIPF3 Gene



SOURCE GeneReport for Unigene cluster for YIPF3 Gene Hs.440950

mRNA Expression by UniProt/SwissProt for YIPF3 Gene

Q9GZM5-YIPF3_HUMAN
Tissue specificity: Expressed by nucleated hematopoietic cells (at protein level).
genes like me logo Genes that share expression patterns with YIPF3: view

Primer Products

No data available for mRNA differential expression in normal tissues and Protein tissue co-expression partners for YIPF3 Gene

Orthologs for YIPF3 Gene

This gene was present in the common ancestor of animals.

Orthologs for YIPF3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia YIPF3 35
  • 91.64 (n)
  • 96.54 (a)
YIPF3 36
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia YIPF3 35
  • 91.87 (n)
  • 96.13 (a)
YIPF3 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Yipf3 35
  • 89.29 (n)
  • 96.13 (a)
Yipf3 16
Yipf3 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia YIPF3 35
  • 99.71 (n)
  • 99.71 (a)
YIPF3 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Yipf3 35
  • 89.48 (n)
  • 95.24 (a)
oppossum
(Monodelphis domestica)
Mammalia YIPF3 36
  • 95 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia YIPF3 36
  • 77 (a)
OneToOne
chicken
(Gallus gallus)
Aves YIPF3 35
  • 78.49 (n)
  • 85.63 (a)
YIPF3 36
  • 81 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia YIPF3 36
  • 81 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.15451 35
zebrafish
(Danio rerio)
Actinopterygii wufj97f06 35
yipf3 35
  • 72.77 (n)
  • 78.08 (a)
yipf3 36
  • 77 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea Y53C12A.3 35
  • 48.56 (n)
  • 40.95 (a)
Y53C12A.3 36
  • 38 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8413 36
  • 49 (a)
OneToOne
Species with no ortholog for YIPF3:
  • 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)
  • 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)

Evolution for YIPF3 Gene

ENSEMBL:
Gene Tree for YIPF3 (if available)
TreeFam:
Gene Tree for YIPF3 (if available)

Paralogs for YIPF3 Gene

Pseudogenes.org Pseudogenes for YIPF3 Gene

genes like me logo Genes that share paralogs with YIPF3: view

No data available for Paralogs for YIPF3 Gene

Variants for YIPF3 Gene

Sequence variations from dbSNP and Humsavar for YIPF3 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
VAR_026906 -
rs11559061 -- 43,512,808(+) CCCTC(A/C/G/T)TCTAC reference, missense
rs11559063 -- 43,512,536(-) CCGTG(A/G)GCCCC reference, missense
rs2231767 -- 43,513,383(-) CATGG(A/G)ATGAA reference, synonymous-codon
rs2231768 -- 43,512,657(-) GGGAA(A/G)AGCCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for YIPF3 Gene

Variant ID Type Subtype PubMed ID
dgv6841n71 CNV Loss 21882294
nsv818414 CNV Gain 17921354

Variation tolerance for YIPF3 Gene

Residual Variation Intolerance Score: 18.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.54; 44.26% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for YIPF3 Gene

Disorders for YIPF3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for YIPF3 Gene - From: DISEASES

Disorder Aliases PubMed IDs
frasier syndrome
  • fs
- elite association - COSMIC cancer census association via MalaCards
Search YIPF3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for YIPF3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
YIPF3
genes like me logo Genes that share disorders with YIPF3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for YIPF3 Gene

Publications for YIPF3 Gene

  1. Characterization of YIPF3 and YIPF4, cis-Golgi localizing Yip domain family proteins. (PMID: 21757827) Tanimoto K. … Nakamura N. (Cell Struct. Funct. 2011) 3 4 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3
  5. Mapping a dynamic innate immunity protein interaction network regulating type I interferon production. (PMID: 21903422) Li S. … Dorf M.E. (Immunity 2011) 3

Products for YIPF3 Gene

Sources for YIPF3 Gene

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