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Aliases for YIPF2 Gene

Aliases for YIPF2 Gene

  • Yip1 Domain Family Member 2 2 3 5
  • YIP1 Family Member 2 3 4
  • Yip1 Domain Family, Member 2 2
  • Protein YIPF2 3
  • FinGER2 3

External Ids for YIPF2 Gene

Previous GeneCards Identifiers for YIPF2 Gene

  • GC19M011033
  • GC19M010611

Summaries for YIPF2 Gene

GeneCards Summary for YIPF2 Gene

YIPF2 (Yip1 Domain Family Member 2) is a Protein Coding gene. Diseases associated with YIPF2 include Tarsal-Carpal Coalition Syndrome and Corneal Dystrophy, Posterior Polymorphous, 1. An important paralog of this gene is YIPF1.

Additional gene information for YIPF2 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 YIPF2 Gene

Genomics for YIPF2 Gene

GeneHancer (GH) Regulatory Elements for YIPF2 Gene

Promoters and enhancers for YIPF2 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
GH19I010927 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 +0.4 391 2.9 PKNOX1 SIN3A DMAP1 ZNF2 ZBTB7B YY1 POLR2B ZNF213 E2F8 ZNF207 TIMM29 YIPF2 EIF3G ILF3 KRI1 PPAN PIR58584
GH19I010100 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 42.8 +824.6 824625 8.3 HDGF FOXA2 PKNOX1 SMAD1 MLX ZFP64 ARID4B SIN3A DMAP1 YBX1 PPAN ANGPTL6 PPAN-P2RY11 ZNF699 ILF3 LOC100419831 ZNF317 FBXL12 ZNF559 KRI1
GH19I011531 Enhancer 1.4 FANTOM5 Ensembl ENCODE 42.8 -603.4 -603426 1.6 PKNOX1 ATF1 ZNF493 ZFP64 ZNF213 FOS ZNF202 ZC3H11A REST ZNF623 ZNF627 ILF3 ZNF136 ZNF442 ZNF844 ZNF625 KRI1 ZNF44 ZNF441 ZNF709
GH19I010415 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE 20.9 +512.4 512366 2 CLOCK MLX DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC PDE4A LOC100419831 ZNF266 KRI1 ILF3 RAVER1 FBXL12 PPAN ZNF561 DNMT1
GH19I010700 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 23.3 +227.3 227337 1.7 PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF213 E2F8 ZNF207 QTRT1 ZNF627 ILF3 LOC100419831 FBXL12 KRI1 DNMT1 RAVER1 YIPF2 CDC37
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around YIPF2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the YIPF2 gene promoter:

Genomic Locations for YIPF2 Gene

Genomic Locations for YIPF2 Gene
chr19:10,922,185-10,929,012
(GRCh38/hg38)
Size:
6,828 bases
Orientation:
Minus strand
chr19:11,033,444-11,039,357
(GRCh37/hg19)

Genomic View for YIPF2 Gene

Genes around YIPF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
YIPF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for YIPF2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YIPF2 Gene

Proteins for YIPF2 Gene

  • Protein details for YIPF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BWQ6-YIPF2_HUMAN
    Recommended name:
    Protein YIPF2
    Protein Accession:
    Q9BWQ6

    Protein attributes for YIPF2 Gene

    Size:
    316 amino acids
    Molecular mass:
    35151 Da
    Quaternary structure:
    • Interacts with YIPF6; this interaction may stabilize YIPF2. May also form a ternary complex with YIPF1 and YIPF6.

neXtProt entry for YIPF2 Gene

Post-translational modifications for YIPF2 Gene

No Post-translational modifications

No data available for DME Specific Peptides for YIPF2 Gene

Domains & Families for YIPF2 Gene

Gene Families for YIPF2 Gene

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

Protein Domains for YIPF2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for YIPF2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BWQ6

UniProtKB/Swiss-Prot:

YIPF2_HUMAN :
  • Belongs to the YIP1 family.
Family:
  • Belongs to the YIP1 family.
genes like me logo Genes that share domains with YIPF2: view

Function for YIPF2 Gene

Phenotypes From GWAS Catalog for YIPF2 Gene

Gene Ontology (GO) - Molecular Function for YIPF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
GO:0017137 Rab GTPase binding IBA --
genes like me logo Genes that share ontologies with YIPF2: view

Phenotypes for YIPF2 Gene

genes like me logo Genes that share phenotypes with YIPF2: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YIPF2 Gene

Localization for YIPF2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YIPF2 Gene

Golgi apparatus, cis-Golgi network membrane; Multi-pass membrane protein. Golgi apparatus, trans-Golgi network membrane. Late endosome membrane. Note=Mainly localizes within medial-/trans-Golgi and trans-Golgi network (TGN), while less so within cis-Golgi. {ECO:0000269 PubMed:27999994, ECO:0000269 PubMed:28286305}.

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 YIPF2 gene
Compartment Confidence
golgi apparatus 5
plasma membrane 3
endosome 3
mitochondrion 2
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
  • Mitochondria (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for YIPF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000138 Golgi trans cisterna IDA 28286305
GO:0005768 endosome IEA --
GO:0005794 Golgi apparatus IBA --
GO:0005797 Golgi medial cisterna IDA 28286305
GO:0005802 trans-Golgi network IDA 28286305
genes like me logo Genes that share ontologies with YIPF2: view

Pathways & Interactions for YIPF2 Gene

SuperPathways for YIPF2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YIPF2 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for YIPF2 Gene

Drugs & Compounds for YIPF2 Gene

No Compound Related Data Available

Transcripts for YIPF2 Gene

Unigene Clusters for YIPF2 Gene

Yip1 domain family, member 2:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for YIPF2 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9a · 9b · 9c
SP1:
SP2: -
SP3:
SP4:
SP5:

Relevant External Links for YIPF2 Gene

GeneLoc Exon Structure for
YIPF2
ECgene alternative splicing isoforms for
YIPF2

Expression for YIPF2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for YIPF2 Gene

Protein differential expression in normal tissues from HIPED for YIPF2 Gene

This gene is overexpressed in Breast (37.9), Oral epithelium (14.3), and Placenta (7.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for YIPF2 Gene



NURSA nuclear receptor signaling pathways regulating expression of YIPF2 Gene:

YIPF2

SOURCE GeneReport for Unigene cluster for YIPF2 Gene:

Hs.720136

Evidence on tissue expression from TISSUES for YIPF2 Gene

  • Skin(4.4)
  • Nervous system(3.8)
  • Intestine(2.2)
genes like me logo Genes that share expression patterns with YIPF2: 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 , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for YIPF2 Gene

Orthologs for YIPF2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for YIPF2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia YIPF2 33 34
  • 99.26 (n)
dog
(Canis familiaris)
Mammalia YIPF2 33 34
  • 86.67 (n)
cow
(Bos Taurus)
Mammalia YIPF2 33 34
  • 86.34 (n)
mouse
(Mus musculus)
Mammalia Yipf2 33 16 34
  • 79.76 (n)
rat
(Rattus norvegicus)
Mammalia Yipf2 33
  • 79.59 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia YIPF2 34
  • 74 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia YIPF2 34
  • 61 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia YIPF2 34
  • 56 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.1767 33
zebrafish
(Danio rerio)
Actinopterygii yipf2 33 34
  • 55.78 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2435 33
fruit fly
(Drosophila melanogaster)
Insecta CG4645 34
  • 26 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea Y25C1A.7 34
  • 23 (a)
OneToMany
soybean
(Glycine max)
eudicotyledons Gma.739 33
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 37 (a)
OneToMany
Species where no ortholog for YIPF2 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)
  • chicken (Gallus gallus)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • 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 YIPF2 Gene

ENSEMBL:
Gene Tree for YIPF2 (if available)
TreeFam:
Gene Tree for YIPF2 (if available)

Paralogs for YIPF2 Gene

Paralogs for YIPF2 Gene

(1) SIMAP similar genes for YIPF2 Gene using alignment to 9 proteins:

genes like me logo Genes that share paralogs with YIPF2: view

Variants for YIPF2 Gene

Sequence variations from dbSNP and Humsavar for YIPF2 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000128864 -- 10,926,584(-) T/G intron_variant
rs1000202760 -- 10,925,652(-) T/C intron_variant
rs1000292949 -- 10,922,976(-) T/C 3_prime_UTR_variant
rs1000293261 -- 10,930,246(-) T/G upstream_transcript_variant
rs1000310241 -- 10,924,622(-) T/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for YIPF2 Gene

Variant ID Type Subtype PubMed ID
nsv833748 CNV loss 17160897
nsv833749 CNV loss 17160897

Variation tolerance for YIPF2 Gene

Residual Variation Intolerance Score: 97.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.96; 36.32% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for YIPF2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
YIPF2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YIPF2 Gene

Disorders for YIPF2 Gene

MalaCards: The human disease database

(4) MalaCards diseases for YIPF2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
tarsal-carpal coalition syndrome
  • tcc
corneal dystrophy, posterior polymorphous, 1
  • ppcd1
proximal symphalangism
  • symphalangism, proximal, 1a
multiple synostoses syndrome
  • symphalangism-brachydactyly syndrome
- elite association - COSMIC cancer census association via MalaCards
Search YIPF2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for YIPF2

genes like me logo Genes that share disorders with YIPF2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for YIPF2 Gene

Publications for YIPF2 Gene

  1. YIPF1, YIPF2, and YIPF6 are medial-/trans-Golgi and trans-Golgi network-localized Yip domain family proteins, which play a role in the Golgi reassembly and glycan synthesis. (PMID: 28286305) Soonthornsit J … Nakamura N (Experimental cell research 2017) 3 4 58
  2. 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 58
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. Functional characterisation of the YIPF protein family in mammalian cells. (PMID: 27999994) Kranjc T … Simpson JC (Histochemistry and cell biology 2017) 4 58

Products for YIPF2 Gene

Sources for YIPF2 Gene

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