Aliases for YIPF2 Gene

Aliases for YIPF2 Gene

  • Yip1 Domain Family Member 2 2 3 5
  • YIP1 Family Member 2 3 4
  • Protein YIPF2 3 4
  • FinGER2 2 3
  • Yip1 Domain Family, Member 2 2
  • MGC3262 2
  • YIPF2 5

External Ids for YIPF2 Gene

Previous GeneCards Identifiers for YIPF2 Gene

  • GC19M010895
  • GC19M011033
  • GC19M010611
  • GC19M010924

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 Brachydactyly, Type B2. 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 Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for YIPF2 Gene

Genomics for YIPF2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for YIPF2 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around YIPF2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for YIPF2

Top Transcription factor binding sites by QIAGEN in the YIPF2 gene promoter:
  • c-Ets-1
  • Egr-4
  • Elk-1
  • Ik-2
  • NF-1
  • Pax-2
  • Pax-2a
  • PPAR-alpha
  • TGIF
  • XBP-1

Genomic Locations for YIPF2 Gene

Genomic Locations for YIPF2 Gene
chr19:10,922,185-10,928,688
(GRCh38/hg38)
Size:
6,504 bases
Orientation:
Minus strand
chr19:11,033,444-11,039,357
(GRCh37/hg19)
Size:
5,914 bases
Orientation:
Minus strand

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

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

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:
  • YIP1 family member 2 (YIPF2_HUMAN)

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 21873635
genes like me logo Genes that share ontologies with YIPF2: view
genes like me logo Genes that share phenotypes with YIPF2: view

Animal Model Products

  • Taconic Biosciences Mouse Models for YIPF2

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for YIPF2

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 2
extracellular 1
cytoskeleton 1
endoplasmic reticulum 1
cytosol 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 IEA,IBA 21873635
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

PathCards logo

SuperPathways for YIPF2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YIPF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016192 vesicle-mediated transport IEA --
genes like me logo Genes that share ontologies with YIPF2: view

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

mRNA/cDNA for YIPF2 Gene

3 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
12 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for YIPF2

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

Expression for YIPF2 Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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 and MOPED for YIPF2 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for YIPF2

SOURCE GeneReport for Unigene cluster for YIPF2 Gene:

Hs.720136

Evidence on tissue expression from TISSUES for YIPF2 Gene

  • Skin(4.5)
  • Nervous system(4.1)
  • Intestine(2.6)
  • Kidney(2.2)
  • Muscle(2.2)
genes like me logo Genes that share expression patterns with YIPF2: view

No data available for 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 30 31
  • 99.26 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia YIPF2 30 31
  • 86.67 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia YIPF2 30 31
  • 86.34 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Yipf2 30 17 31
  • 79.76 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Yipf2 30
  • 79.59 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia YIPF2 31
  • 74 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia YIPF2 31
  • 61 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia YIPF2 31
  • 56 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia Str.1767 30
Zebrafish
(Danio rerio)
Actinopterygii yipf2 30 31
  • 55.78 (n)
OneToOne
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2435 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG4645 31
  • 26 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea Y25C1A.7 31
  • 23 (a)
OneToMany
Soybean
(Glycine max)
eudicotyledons Gma.739 30
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 37 (a)
OneToMany
Species where no ortholog for YIPF2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (Ciona intestinalis)
  • 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)
Aminode:
Evolutionary constrained regions (ECRs) for YIPF2: view image

Paralogs for YIPF2 Gene

Paralogs for YIPF2 Gene

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

  • YIPF2_HUMAN
  • K7EIP7_HUMAN
  • K7EJN9_HUMAN
  • K7EL70_HUMAN
  • K7EM92_HUMAN
  • K7ENM8_HUMAN
  • K7ENZ5_HUMAN
  • K7EQH3_HUMAN
  • K7ERW0_HUMAN
genes like me logo Genes that share paralogs with YIPF2: view

Variants for YIPF2 Gene

Additional dbSNP identifiers (rs#s) for YIPF2 Gene

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

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 YIPF2 Gene

Disorders for YIPF2 Gene

MalaCards: The human disease database

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

- elite association - COSMIC cancer census association via MalaCards
Search YIPF2 in MalaCards View complete list of genes associated with diseases
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) 2 3 4
  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
  3. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  4. Functional characterisation of the YIPF protein family in mammalian cells. (PMID: 27999994) Kranjc T … Simpson JC (Histochemistry and cell biology 2017) 4
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3

Products for YIPF2 Gene

Sources for YIPF2 Gene