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Aliases for ZFYVE28 Gene

Aliases for ZFYVE28 Gene

  • Zinc Finger FYVE-Type Containing 28 2 3 5
  • Zinc Finger FYVE Domain-Containing Protein 28 3 4
  • Zinc Finger, FYVE Domain Containing 28 2 3
  • HLst2 3 4
  • LST2 3 4
  • Lateral Signaling Target Protein 2 Homolog 3
  • KIAA1643 4
  • LYST2 3

External Ids for ZFYVE28 Gene

Previous GeneCards Identifiers for ZFYVE28 Gene

  • GC04M002233
  • GC04M002238

Summaries for ZFYVE28 Gene

GeneCards Summary for ZFYVE28 Gene

ZFYVE28 (Zinc Finger FYVE-Type Containing 28) is a Protein Coding gene. Among its related pathways are Internalization of ErbB1. Gene Ontology (GO) annotations related to this gene include phosphatidylinositol-3-phosphate binding. An important paralog of this gene is ZFYVE16.

UniProtKB/Swiss-Prot for ZFYVE28 Gene

  • Negative regulator of epidermal growth factor receptor (EGFR) signaling. Acts by promoting EGFR degradation in endosomes when not monoubiquitinated.

Additional gene information for ZFYVE28 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZFYVE28 Gene

Genomics for ZFYVE28 Gene

GeneHancer (GH) Regulatory Elements for ZFYVE28 Gene

Promoters and enhancers for ZFYVE28 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH04I002415 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 571.5 +0.7 690 4.2 PKNOX1 ARNT ARID4B SIN3A ZNF2 YY1 ZNF766 ZNF207 ZNF143 SP3 ZFYVE28 CFAP99 SH3BP2 RNF4 MXD4 GC04M002409
GH04I002361 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE 593.4 +55.2 55239 4.5 HDAC1 FOXA2 PKNOX1 ATF1 RB1 RAD21 YY1 EGR1 CREM SMAD5 ZFYVE28 ENSG00000251148 MXD4 CFAP99 RNF4 LOC105374353 HAUS3 POLN NELFA C4orf48
GH04I002411 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 35 +5.6 5635 4.1 PKNOX1 ARID4B SIN3A FEZF1 IRF4 ZNF766 ZNF143 FOS ZNF263 REST ZFYVE28 HAUS3 RNF4 MXD4 SH3BP2 CFAP99 HTT TNIP2 GC04M002409 GC04P002406
GH04I002401 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 26.2 +16.3 16289 1.2 HDAC1 PKNOX1 SIN3A ZNF48 EGR1 KLF7 ATF7 EGR2 SP3 SP5 ZFYVE28 RNF4 LOC105374353 ENSG00000251148 MXD4 HAUS3 POLN NELFA C4orf48 GC04P002406
GH04I002393 Enhancer 1.2 Ensembl ENCODE dbSUPER 27.6 +24.9 24866 0.8 HDAC1 ATF1 CBX5 ATF7 ELF1 ZNF592 ZNF148 MEF2D ATF4 SMARCA4 PIR44270 ZFYVE28 ENSG00000251148 MXD4 HAUS3 POLN RNF4 LOC105374353 C4orf48 NELFA
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ZFYVE28 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ZFYVE28 gene promoter:

Genomic Locations for ZFYVE28 Gene

Genomic Locations for ZFYVE28 Gene
151,167 bases
Minus strand

Genomic View for ZFYVE28 Gene

Genes around ZFYVE28 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZFYVE28 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZFYVE28 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZFYVE28 Gene

Proteins for ZFYVE28 Gene

  • Protein details for ZFYVE28 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Lateral signaling target protein 2 homolog
    Protein Accession:
    Secondary Accessions:
    • B2RP83
    • B3KX50
    • B7Z1Q7
    • B7Z2G9
    • B7Z2M2
    • B7ZB19
    • E9PB54
    • E9PB64
    • E9PG77
    • Q7Z6J3

    Protein attributes for ZFYVE28 Gene

    887 amino acids
    Molecular mass:
    96490 Da
    Quaternary structure:
    • Interacts with TRIM3.
    • Sequence=AAH53664.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB13469.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for ZFYVE28 Gene

neXtProt entry for ZFYVE28 Gene

Post-translational modifications for ZFYVE28 Gene

  • Monoubiquitination at Lys-87 prevents binding to phosphatidylinositol 3-phosphate (PI3P) and localization to early endosome membranes.
  • Ubiquitination at isoforms=2, 3, 4, 6, 7, 887
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for ZFYVE28 Gene

Domains & Families for ZFYVE28 Gene

Gene Families for ZFYVE28 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for ZFYVE28 Gene

Suggested Antigen Peptide Sequences for ZFYVE28 Gene

Graphical View of Domain Structure for InterPro Entry



  • The FYVE-type zinc finger mediates the interaction with phosphatidylinositol 3-phosphate (PI3P) and localization to early endosome membranes when not monoubiquitinated at Lys-87.
  • Belongs to the lst-2 family.
  • The FYVE-type zinc finger mediates the interaction with phosphatidylinositol 3-phosphate (PI3P) and localization to early endosome membranes when not monoubiquitinated at Lys-87.
  • Belongs to the lst-2 family.
genes like me logo Genes that share domains with ZFYVE28: view

Function for ZFYVE28 Gene

Molecular function for ZFYVE28 Gene

UniProtKB/Swiss-Prot Function:
Negative regulator of epidermal growth factor receptor (EGFR) signaling. Acts by promoting EGFR degradation in endosomes when not monoubiquitinated.

Phenotypes From GWAS Catalog for ZFYVE28 Gene

Gene Ontology (GO) - Molecular Function for ZFYVE28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 19460345
GO:0032266 phosphatidylinositol-3-phosphate binding IDA 19460345
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZFYVE28: view
genes like me logo Genes that share phenotypes with ZFYVE28: view

Animal Models for ZFYVE28 Gene

MGI Knock Outs for ZFYVE28:

Animal Model Products

miRNA for ZFYVE28 Gene

miRTarBase miRNAs that target ZFYVE28

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ZFYVE28 Gene

Localization for ZFYVE28 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZFYVE28 Gene

Cytoplasm, cytosol. Early endosome membrane. Note=Localizes to early endosome membrane in absence of Lys-87 monoubiquitination. Localizes to cytosol when monoubiquitinated.

Subcellular locations from

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 ZFYVE28 gene
Compartment Confidence
cytosol 5
endosome 5
plasma membrane 2
nucleus 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleus (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZFYVE28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005768 endosome IEA --
GO:0005829 cytosol IDA,IEA 19460345
GO:0016020 membrane IEA --
GO:0031901 early endosome membrane IEA,IDA 19460345
genes like me logo Genes that share ontologies with ZFYVE28: view

Pathways & Interactions for ZFYVE28 Gene

SuperPathways for ZFYVE28 Gene

SuperPathway Contained pathways
1 Internalization of ErbB1
genes like me logo Genes that share pathways with ZFYVE28: view

Pathways by source for ZFYVE28 Gene

1 BioSystems pathway for ZFYVE28 Gene

Gene Ontology (GO) - Biological Process for ZFYVE28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007175 negative regulation of epidermal growth factor-activated receptor activity IMP 19460345
GO:0042059 negative regulation of epidermal growth factor receptor signaling pathway IMP 19460345
genes like me logo Genes that share ontologies with ZFYVE28: view

No data available for SIGNOR curated interactions for ZFYVE28 Gene

Drugs & Compounds for ZFYVE28 Gene

No Compound Related Data Available

Transcripts for ZFYVE28 Gene

Unigene Clusters for ZFYVE28 Gene

Zinc finger, FYVE domain containing 28:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZFYVE28 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a ·
SP1: - - - - - - - - - - -
SP3: - - - - - - - -
SP4: - - - - -
SP5: - - - - - - - - -
SP6: - - -

ExUns: 19b ^ 20a · 20b ^ 21
SP1: -
SP2: -

Relevant External Links for ZFYVE28 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZFYVE28 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZFYVE28 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ZFYVE28 Gene

This gene is overexpressed in Brain - Cerebellum (x6.7) and Brain - Cerebellar Hemisphere (x5.9).

Protein differential expression in normal tissues from HIPED for ZFYVE28 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for ZFYVE28 Gene

Protein tissue co-expression partners for ZFYVE28 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZFYVE28 Gene:


SOURCE GeneReport for Unigene cluster for ZFYVE28 Gene:


Evidence on tissue expression from TISSUES for ZFYVE28 Gene

  • Nervous system(4.4)
  • Pancreas(4.1)
genes like me logo Genes that share expression patterns with ZFYVE28: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZFYVE28 Gene

Orthologs for ZFYVE28 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for ZFYVE28 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZFYVE28 33 34
  • 97.66 (n)
(Mus musculus)
Mammalia Zfyve28 33 16 34
  • 82.73 (n)
(Bos Taurus)
Mammalia ZFYVE28 33 34
  • 82.66 (n)
(Rattus norvegicus)
Mammalia Zfyve28 33
  • 82.24 (n)
(Canis familiaris)
Mammalia ZFYVE28 33 34
  • 81.25 (n)
(Ornithorhynchus anatinus)
Mammalia ZFYVE28 34
  • 75 (a)
(Monodelphis domestica)
Mammalia ZFYVE28 34
  • 71 (a)
(Gallus gallus)
Aves ZFYVE28 33 34
  • 66.67 (n)
(Anolis carolinensis)
Reptilia ZFYVE28 34
  • 55 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia zfyve28 33
  • 68.22 (n)
(Danio rerio)
Actinopterygii zfyve28 33 34
  • 66.3 (n)
idibd1374 33
fruit fly
(Drosophila melanogaster)
Insecta CG6051 34
  • 32 (a)
(Caenorhabditis elegans)
Secernentea lst-2 34
  • 41 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes FAB1 34
  • 5 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4065 34
  • 10 (a)
Species where no ortholog for ZFYVE28 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)
  • 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)
  • 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)
  • wheat (Triticum aestivum)

Evolution for ZFYVE28 Gene

Gene Tree for ZFYVE28 (if available)
Gene Tree for ZFYVE28 (if available)

Paralogs for ZFYVE28 Gene

Paralogs for ZFYVE28 Gene

(1) SIMAP similar genes for ZFYVE28 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with ZFYVE28: view

Variants for ZFYVE28 Gene

Sequence variations from dbSNP and Humsavar for ZFYVE28 Gene

SNP ID Clin Chr 04 pos Variation AA Info Type
rs1000006441 -- 2,382,921(-) A/G genic_upstream_transcript_variant, intron_variant
rs1000011008 -- 2,419,669(-) G/C upstream_transcript_variant
rs1000011773 -- 2,301,358(-) A/C genic_downstream_transcript_variant, intron_variant
rs1000057054 -- 2,397,931(-) A/G genic_upstream_transcript_variant, intron_variant
rs1000058735 -- 2,388,642(-) T/C genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ZFYVE28 Gene

Variant ID Type Subtype PubMed ID
dgv118e180 CNV deletion 20482838
dgv2709n106 CNV tandem duplication 24896259
dgv2710n106 CNV deletion 24896259
dgv312n21 CNV loss 19592680
dgv805e201 CNV deletion 23290073
dgv8917n54 CNV gain+loss 21841781
dgv8918n54 CNV loss 21841781
dgv8919n54 CNV loss 21841781
esv1496535 CNV deletion 17803354
esv1676935 CNV deletion 17803354
esv2058080 CNV deletion 18987734
esv2490640 CNV insertion 19546169
esv25676 CNV loss 19812545
esv2573577 CNV insertion 19546169
esv2581020 CNV deletion 19546169
esv2669640 CNV deletion 23128226
esv27184 CNV loss 19812545
esv2726835 CNV deletion 23290073
esv2726836 CNV deletion 23290073
esv2726837 CNV deletion 23290073
esv2726838 CNV deletion 23290073
esv2726839 CNV deletion 23290073
esv2726842 CNV deletion 23290073
esv2726844 CNV deletion 23290073
esv2726845 CNV deletion 23290073
esv2831347 CNV deletion 24192839
esv2861791 CNV duplication 24192839
esv3046134 CNV deletion 24192839
esv32578 CNV loss 17666407
esv3354048 CNV duplication 20981092
esv33985 CNV gain+loss 17666407
esv3444124 CNV duplication 20981092
esv3563255 CNV deletion 23714750
esv3563256 CNV deletion 23714750
esv3575671 CNV gain 25503493
esv4159 CNV loss 18987735
esv6725 CNV loss 19470904
nsv1009347 CNV gain 25217958
nsv1013194 CNV gain 25217958
nsv1072350 CNV deletion 25765185
nsv1074670 CNV deletion 25765185
nsv1114480 CNV deletion 24896259
nsv1141809 CNV insertion 24896259
nsv1143074 CNV tandem duplication 24896259
nsv1148780 CNV deletion 26484159
nsv1153819 CNV deletion 26484159
nsv291825 CNV deletion 16902084
nsv4200 CNV insertion 18451855
nsv508990 CNV insertion 20534489
nsv513117 CNV loss 21212237
nsv518472 CNV loss 19592680
nsv524965 CNV loss 19592680
nsv527189 CNV loss 19592680
nsv593401 CNV loss 21841781
nsv593402 CNV loss 21841781
nsv593403 CNV loss 21841781
nsv593404 CNV loss 21841781
nsv593405 CNV gain 21841781
nsv593409 CNV gain+loss 21841781
nsv593410 CNV loss 21841781
nsv593413 CNV gain 21841781
nsv593418 CNV loss 21841781
nsv593419 CNV loss 21841781
nsv821601 CNV deletion 20802225
nsv829838 CNV loss 17160897
nsv954400 CNV deletion 24416366

Variation tolerance for ZFYVE28 Gene

Residual Variation Intolerance Score: 92% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.85; 67.28% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZFYVE28 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZFYVE28 Gene

Disorders for ZFYVE28 Gene

Additional Disease Information for ZFYVE28

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for ZFYVE28 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZFYVE28 Gene

Publications for ZFYVE28 Gene

  1. Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10997877) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 2 3 4 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. Monoubiquitinylation regulates endosomal localization of Lst2, a negative regulator of EGF receptor signaling. (PMID: 19460345) Mosesson Y … Yarden Y (Developmental cell 2009) 3 4 58
  4. Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects. (PMID: 24324551) Deng X … REDSII Chagas Study Group from the NHLBI Retrovirus Epidemiology Donor Study-II Component International (PloS one 2013) 3 58
  5. Toward a comprehensive characterization of a human cancer cell phosphoproteome. (PMID: 23186163) Zhou H … Mohammed S (Journal of proteome research 2013) 4 58

Products for ZFYVE28 Gene

Sources for ZFYVE28 Gene

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