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Aliases for YIPF3 Gene

Aliases for YIPF3 Gene

  • Yip1 Domain Family, Member 3 2 3
  • KLIP1 3 4 6
  • Natural Killer Cell-Specific Antigen KLIP1 3 4
  • Killer Lineage Protein 1 3 4
  • C6orf109 3 4
  • Chromosome 6 Open Reading Frame 109 2
  • YIP1 Family Member 3 4
  • Protein YIPF3 3
  • DJ337H4.3 3
  • FinGER3 3

External Ids for YIPF3 Gene

Previous Symbols for YIPF3 Gene

  • C6orf109

Summaries for YIPF3 Gene

GeneCards Summary for YIPF3 Gene

YIPF3 (Yip1 Domain Family, Member 3) is a Protein Coding gene.

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

Genomic Location for YIPF3 Gene

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

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for YIPF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YIPF3 Gene

Regulatory Elements 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).
  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys86, Lys102, and Lys141
  • Glycosylation at Thr333, Thr334, Asn337, Thr339, Thr346, and Ser349

No data available for DME Specific Peptides for YIPF3 Gene

Domains for YIPF3 Gene

Gene Families for YIPF3 Gene

HGNC:
  • YIPF :Yip1 domain family

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
Family:
  • Belongs to the YIP1 family.:
    • Q9GZM5
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.

Gene Ontology (GO) - Molecular Function for YIPF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with YIPF3: view

Phenotypes for YIPF3 Gene

GenomeRNAi human phenotypes for YIPF3:
genes like me logo Genes that share phenotypes with YIPF3: view

miRNA for YIPF3 Gene

miRTarBase miRNAs that target YIPF3

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting 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
plasma membrane 5
golgi apparatus 3
peroxisome 1

Gene Ontology (GO) - Cellular Components for YIPF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005794 Golgi apparatus IDA --
GO:0005886 plasma membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030133 transport vesicle IDA --
genes like me logo Genes that share ontologies with YIPF3: view

Pathways for YIPF3 Gene

SuperPathways for YIPF3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YIPF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with YIPF3: view

No data available for Pathways by source for YIPF3 Gene

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

Integrated Proteomics: protein expression 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 expressions with YIPF3: view

No data available for mRNA differential expression in normal tissues 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
chimpanzee
(Pan troglodytes)
Mammalia YIPF3 35
  • 99.71 (n)
  • 99.71 (a)
YIPF3 36
  • 100 (a)
OneToOne
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
oppossum
(Monodelphis domestica)
Mammalia YIPF3 36
  • 95 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia YIPF3 36
  • 77 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Yipf3 35
  • 89.48 (n)
  • 95.24 (a)
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 MAF
rs2231767 -- 43,513,383(-) CATGG(A/G)ATGAA synonymous-codon, reference
rs2231768 -- 43,512,657(-) GGGAA(A/G)AGCCC intron-variant
rs2231769 -- 43,512,612(-) CCCCA(C/T)TCCTC intron-variant
rs2231770 -- 43,512,569(-) CATGG(C/T)CCTAG intron-variant
rs2231771 -- 43,512,365(-) ATGGC(C/T)GGTGG 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

Relevant External Links for YIPF3 Gene

HapMap Linkage Disequilibrium report
YIPF3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YIPF3 Gene

Disorders for YIPF3 Gene

No disorders were found for YIPF3 Gene.

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

Publications for YIPF3 Gene

  1. Characterization of a novel hematopoietic marker expressed from early embryonic hematopoietic stem cells to adult mature lineages. (PMID: 12490290) Prost S. … Kirszenbaum M. (Blood Cells Mol. Dis. 2002) 3 4
  2. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall A.J. … Beck S. (Nature 2003) 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. Characterization of YIPF3 and YIPF4, cis-Golgi localizing Yip domain family proteins. (PMID: 21757827) Tanimoto K. … Nakamura N. (Cell Struct. Funct. 2011) 3 4

Products for YIPF3 Gene

Sources for YIPF3 Gene

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