Aliases for LYPD5 Gene

Aliases for LYPD5 Gene

  • LY6/PLAUR Domain Containing 5 2 3 5
  • Ly6/PLAUR Domain-Containing Protein 5 3 4
  • Metastasis-Associated Protein 3
  • PRO4356 3

External Ids for LYPD5 Gene

Previous GeneCards Identifiers for LYPD5 Gene

  • GC19M048993
  • GC19M044300
  • GC19M040733
  • GC19M043784
  • GC19M043795
  • GC19M043788
  • GC19M043789

Summaries for LYPD5 Gene

GeneCards Summary for LYPD5 Gene

LYPD5 (LY6/PLAUR Domain Containing 5) is a Protein Coding gene. Diseases associated with LYPD5 include Mal De Meleda. Among its related pathways are Metabolism of proteins and Post-translational modification- synthesis of GPI-anchored proteins. An important paralog of this gene is LYPD3.

Additional gene information for LYPD5 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 LYPD5 Gene

Genomics for LYPD5 Gene

GeneHancer (GH) Regulatory Elements for LYPD5 Gene

Promoters and enhancers for LYPD5 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
GH19J043826 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 500.7 -0.4 -395 2 ZBTB40 ZNF217 ZNF300 POLR2G RBAK SIX5 ZFX ZIC2 POLR2A ZBTB11 ZNF283 LYPD5 lnc-LYPD5-1 ZNF225 ZNF45 ZNF227 ZNF180 ZNF223 ZNF226 ZNF235
GH19J043802 Promoter 0.4 EPDnew 500.4 +24.7 24739 0.1 REST LYPD5 piR-52460 lnc-LYPD5-1
GH19J043773 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 22.9 +47.2 47238 12.3 HNRNPK ZNF217 CTCF SIN3A NRF1 TCF12 ZNF300 RBAK JUND PHB2 KCNN4 ZNF45 ZNF180 ZNF225 ZNF227 ZNF283 ZNF284 ZNF576 ZNF223 ZNF235
GH19J043798 Promoter/Enhancer 1.4 Ensembl ENCODE dbSUPER 35.5 +28.2 28189 1.6 NRF1 ZNF300 RBAK ZNF639 ZNF10 ZIC2 POLR2A ZBTB10 ZNF423 ZBTB26 lnc-KCNN4-2 piR-52460 ZNF225 ZNF180 ZNF45 ZNF223 ZNF227 ZNF284 ZNF226 ZNF224
GH19J043634 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 7.3 +189.8 189775 6.4 FOXK2 HNRNPK NRF1 POLR2G NCOR1 BCLAF1 PHB2 TEAD4 ZNF639 ZNF10 CADM4 LOC105372410 ZNF45 ZNF180 ZNF227 ZNF225 ZNF221 ZNF283 ZNF226 ZNF112
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LYPD5 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LYPD5

Top Transcription factor binding sites by QIAGEN in the LYPD5 gene promoter:
  • AP-1
  • ATF-2
  • c-Jun
  • HOXA5
  • LUN-1
  • Meis-1b
  • p53
  • POU2F1
  • POU2F1a
  • SEF-1 (1)

Genomic Locations for LYPD5 Gene

Genomic Locations for LYPD5 Gene
chr19:43,785,874-43,827,206
(GRCh38/hg38)
Size:
41,333 bases
Orientation:
Minus strand
chr19:44,300,079-44,331,358
(GRCh37/hg19)
Size:
31,280 bases
Orientation:
Minus strand

Genomic View for LYPD5 Gene

Genes around LYPD5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LYPD5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LYPD5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LYPD5 Gene

Proteins for LYPD5 Gene

  • Protein details for LYPD5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6UWN5-LYPD5_HUMAN
    Recommended name:
    Ly6/PLAUR domain-containing protein 5
    Protein Accession:
    Q6UWN5
    Secondary Accessions:
    • Q6PEX9
    • Q96DR2

    Protein attributes for LYPD5 Gene

    Size:
    251 amino acids
    Molecular mass:
    26936 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH57816.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for LYPD5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LYPD5 Gene

Post-translational modifications for LYPD5 Gene

  • Glycosylation at Asn120 and Asn174
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LYPD5 Gene

Domains & Families for LYPD5 Gene

Gene Families for LYPD5 Gene

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

Protein Domains for LYPD5 Gene

Blocks:
  • CD59 antigen
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LYPD5 Gene

GenScript: Design optimal peptide antigens:
  • Ly6/PLAUR domain-containing protein 5 (LYPD5_HUMAN)
genes like me logo Genes that share domains with LYPD5: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LYPD5 Gene

Function for LYPD5 Gene

Phenotypes From GWAS Catalog for LYPD5 Gene

Gene Ontology (GO) - Molecular Function for LYPD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043236 laminin binding IBA 21873635
genes like me logo Genes that share ontologies with LYPD5: view
genes like me logo Genes that share phenotypes with LYPD5: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LYPD5

CRISPR Products

miRNA for LYPD5 Gene

miRTarBase miRNAs that target LYPD5

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LYPD5 Gene

Localization for LYPD5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LYPD5 Gene

Cell membrane; Lipid-anchor, GPI-anchor.

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 LYPD5 gene
Compartment Confidence
extracellular 4
plasma membrane 3
nucleus 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LYPD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005886 plasma membrane TAS,IBA --
GO:0016020 membrane IEA --
GO:0031225 anchored component of membrane IEA --
genes like me logo Genes that share ontologies with LYPD5: view

Pathways & Interactions for LYPD5 Gene

genes like me logo Genes that share pathways with LYPD5: view

Interacting Proteins for LYPD5 Gene

;

Gene Ontology (GO) - Biological Process for LYPD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007160 cell-matrix adhesion IBA 21873635
genes like me logo Genes that share ontologies with LYPD5: view

No data available for SIGNOR curated interactions for LYPD5 Gene

Drugs & Compounds for LYPD5 Gene

No Compound Related Data Available

Transcripts for LYPD5 Gene

mRNA/cDNA for LYPD5 Gene

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

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LYPD5 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c · 6d · 6e
SP1: - - -
SP2: - - - - -
SP3: - -
SP4: - - - -
SP5: -
SP6:

Relevant External Links for LYPD5 Gene

GeneLoc Exon Structure for
LYPD5

Expression for LYPD5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LYPD5 Gene

mRNA differential expression in normal tissues according to GTEx for LYPD5 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x10.2) and Skin - Not Sun Exposed (Suprapubic) (x9.8).

Protein differential expression in normal tissues from HIPED for LYPD5 Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LYPD5 Gene



Protein tissue co-expression partners for LYPD5 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LYPD5

SOURCE GeneReport for Unigene cluster for LYPD5 Gene:

Hs.44289

Evidence on tissue expression from TISSUES for LYPD5 Gene

  • Nervous system(4.4)
genes like me logo Genes that share expression patterns with LYPD5: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LYPD5 Gene

Orthologs for LYPD5 Gene

This gene was present in the common ancestor of mammals.

Orthologs for LYPD5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LYPD5 31 30
  • 92.04 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LYPD5 31 30
  • 80.46 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lypd5 30
  • 77.34 (n)
mouse
(Mus musculus)
Mammalia Lypd5 17 31 30
  • 76.77 (n)
dog
(Canis familiaris)
Mammalia LYPD5 31
  • 75 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 44 (a)
OneToMany
-- 31
  • 41 (a)
OneToMany
Species where no ortholog for LYPD5 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LYPD5 Gene

ENSEMBL:
Gene Tree for LYPD5 (if available)
TreeFam:
Gene Tree for LYPD5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LYPD5: view image

Paralogs for LYPD5 Gene

Paralogs for LYPD5 Gene

genes like me logo Genes that share paralogs with LYPD5: view

Variants for LYPD5 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LYPD5 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
715325 Benign: not provided 43,797,597(-) T/C SYNONYMOUS_VARIANT
rs114779742 - p.Pro47Ala
rs11547806 - p.Ala90Pro
rs349053 - p.Asn167Ser

Additional dbSNP identifiers (rs#s) for LYPD5 Gene

Structural Variations from Database of Genomic Variants (DGV) for LYPD5 Gene

Variant ID Type Subtype PubMed ID
esv1576801 CNV insertion 17803354
nsv1115993 CNV insertion 24896259
nsv1119472 CNV insertion 24896259
nsv1138708 CNV deletion 24896259
nsv509745 CNV insertion 20534489

Variation tolerance for LYPD5 Gene

Residual Variation Intolerance Score: 51.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 13.11; 95.12% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LYPD5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LYPD5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LYPD5 Gene

Disorders for LYPD5 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LYPD5 Gene - From: DISEASES

Disorder Aliases PubMed IDs
mal de meleda
  • mdm
- elite association - COSMIC cancer census association via MalaCards
Search LYPD5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LYPD5

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with LYPD5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LYPD5 Gene

Publications for LYPD5 Gene

  1. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 41 54
  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 54
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54
  4. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PMID: 15340161) Zhang Z … Henzel WJ (Protein science : a publication of the Protein Society 2004) 3 4 54
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 54

Products for LYPD5 Gene

Sources for LYPD5 Gene