Aliases for LCE3E Gene

Aliases for LCE3E Gene

  • Late Cornified Envelope 3E 2 3 5
  • LEP17 2 3 4
  • Late Cornified Envelope Protein 3E 3 4
  • Late Envelope Protein 17 3 4
  • LCE3E 5

External Ids for LCE3E Gene

Previous GeneCards Identifiers for LCE3E Gene

  • GC01M149351
  • GC01M150804
  • GC01M152538
  • GC01M123911

Summaries for LCE3E Gene

GeneCards Summary for LCE3E Gene

LCE3E (Late Cornified Envelope 3E) is a Protein Coding gene. Among its related pathways are Keratinization and Developmental Biology. An important paralog of this gene is LCE3D.

UniProtKB/Swiss-Prot Summary for LCE3E Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LCE3E Gene

Genomics for LCE3E Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LCE3E 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
GH01J152567 Promoter 0.3 EPDnew 250.7 0.0 -20 0.1 HSALNG0007233 LCE3E LCE3D lnc-LCE3D-1
GH01J152566 Enhancer 0.2 ENCODE 250.7 -0.2 -150 0.1 HSALNG0007233 LCE3E LCE3C LCE3D lnc-LCE3D-1
GH01J152517 Enhancer 0.4 Ensembl 0.3 +49.3 49279 1 EGR2 ESRRA MAFK ZFHX2 HSALNG0007230 LCE3D CRNN CRCT1 LCE3E
GH01J152519 Enhancer 0.4 Ensembl 0.3 +46.9 46879 1.8 SPI1 POLR2A SREBF1 HSALNG0007230 HSALNG0007231 lnc-CRCT1-1 LCE3D LCE3A CRNN THEM5 CRCT1 LCE3E
GH01J152537 Enhancer 0.2 Ensembl 0.3 +29.2 29179 0.4 CRCT1 LCE5A LCE3D FLG-AS1 CRNN lnc-CRCT1-2 piR-32461-009 LCE3E
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LCE3E on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LCE3E

Top Transcription factor binding sites by QIAGEN in the LCE3E gene promoter:
  • AML1a
  • C/EBPbeta
  • GR
  • GR-alpha
  • GR-beta
  • PPAR-gamma2
  • Spz1
  • Zic3

Genomic Locations for LCE3E Gene

Latest Assembly
chr1:152,565,654-152,566,780
(GRCh38/hg38)
Size:
1,127 bases
Orientation:
Minus strand

Previous Assembly
chr1:152,538,130-152,539,256
(GRCh37/hg19 by Entrez Gene)
Size:
1,127 bases
Orientation:
Minus strand

chr1:152,538,130-152,539,248
(GRCh37/hg19 by Ensembl)
Size:
1,119 bases
Orientation:
Minus strand

Genomic View for LCE3E Gene

Genes around LCE3E on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCE3E Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCE3E Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCE3E Gene

Proteins for LCE3E Gene

  • Protein details for LCE3E Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5T5B0-LCE3E_HUMAN
    Recommended name:
    Late cornified envelope protein 3E
    Protein Accession:
    Q5T5B0
    Secondary Accessions:
    • A2RRM6

    Protein attributes for LCE3E Gene

    Size:
    92 amino acids
    Molecular mass:
    9507 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • Belongs to the LCE cluster present on 1q21.

neXtProt entry for LCE3E Gene

Post-translational modifications for LCE3E Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LCE3E Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LCE3E Gene

Domains & Families for LCE3E Gene

Gene Families for LCE3E Gene

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

Protein Domains for LCE3E Gene

InterPro:

Suggested Antigen Peptide Sequences for LCE3E Gene

GenScript: Design optimal peptide antigens:
  • Late envelope protein 17 (LCE3E_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q5T5B0

UniProtKB/Swiss-Prot:

LCE3E_HUMAN :
  • Belongs to the LCE family.
Family:
  • Belongs to the LCE family.
genes like me logo Genes that share domains with LCE3E: view

Function for LCE3E Gene

Molecular function for LCE3E Gene

UniProtKB/Swiss-Prot Function:
Precursors of the cornified envelope of the stratum corneum.
UniProtKB/Swiss-Prot Induction:
By UVB.

Phenotypes From GWAS Catalog for LCE3E Gene

Gene Ontology (GO) - Molecular Function for LCE3E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with LCE3E: view
genes like me logo Genes that share phenotypes with LCE3E: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LCE3E

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LCE3E Gene

Localization for LCE3E Gene

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 LCE3E gene
Compartment Confidence
plasma membrane 2
extracellular 2
cytoskeleton 1
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for LCE3E Gene

Pathways & Interactions for LCE3E Gene

PathCards logo

SuperPathways for LCE3E Gene

genes like me logo Genes that share pathways with LCE3E: view

Pathways by source for LCE3E Gene

Gene Ontology (GO) - Biological Process for LCE3E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008544 epidermis development IEA --
GO:0031424 keratinization IEA --
genes like me logo Genes that share ontologies with LCE3E: view

No data available for SIGNOR curated interactions for LCE3E Gene

Drugs & Compounds for LCE3E Gene

No Compound Related Data Available

Transcripts for LCE3E Gene

mRNA/cDNA for LCE3E Gene

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

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LCE3E

Alternative Splicing Database (ASD) splice patterns (SP) for LCE3E Gene

No ASD Table

Relevant External Links for LCE3E Gene

GeneLoc Exon Structure for
LCE3E

Expression for LCE3E Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LCE3E Gene

mRNA differential expression in normal tissues according to GTEx for LCE3E Gene

This gene is overexpressed in Cervix - Ectocervix (x26.6) and Vagina (x15.9).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LCE3E

SOURCE GeneReport for Unigene cluster for LCE3E Gene:

Hs.490208

mRNA Expression by UniProt/SwissProt for LCE3E Gene:

Q5T5B0-LCE3E_HUMAN
Tissue specificity: Skin-specific. Expression was readily detected in adult trunk skin, adult arm skin, fetal skin, penal skin, vulva, esophagus and tongue. Not expressed in the cervix, rectum, lung, colon, or placenta.
genes like me logo Genes that share expression patterns with LCE3E: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LCE3E Gene

Orthologs for LCE3E Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for LCE3E Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LCE3E 30
  • 97 (a)
OneToOne
Species where no ortholog for LCE3E 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)
  • Cow (Bos Taurus)
  • Dog (Canis familiaris)
  • 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)
  • Mouse (Mus musculus)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (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 LCE3E Gene

ENSEMBL:
Gene Tree for LCE3E (if available)
TreeFam:
Gene Tree for LCE3E (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LCE3E: view image
Alliance of Genome Resources:
Additional Orthologs for LCE3E

Paralogs for LCE3E Gene

genes like me logo Genes that share paralogs with LCE3E: view

Variants for LCE3E Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LCE3E Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for LCE3E Gene

Variant ID Type Subtype PubMed ID
dgv100e212 CNV loss 25503493
dgv37n27 CNV loss 19166990
dgv38n27 CNV loss 19166990
dgv39n27 CNV loss 19166990
dgv416n100 CNV loss 25217958
dgv565n54 CNV loss 21841781
dgv566n54 CNV loss 21841781
dgv567n54 CNV loss 21841781
dgv568n54 CNV loss 21841781
dgv569n54 CNV loss 21841781
esv2750810 CNV gain 17911159
esv2758970 CNV gain+loss 17122850
esv2762965 CNV loss 21179565
esv3578182 CNV loss 25503493
esv3587561 CNV loss 21293372
esv3587562 CNV gain 21293372
nsv1002425 CNV loss 25217958
nsv2888 CNV deletion 18451855
nsv437244 CNV loss 16327808
nsv470739 CNV loss 18288195
nsv516961 CNV loss 19592680
nsv547862 CNV loss 21841781

Variation tolerance for LCE3E Gene

Residual Variation Intolerance Score: 77.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.28; 25.54% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LCE3E Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LCE3E
Leiden Open Variation Database (LOVD)
LCE3E

SNP Genotyping and Copy Number Assays for research

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 LCE3E Gene

Disorders for LCE3E Gene

Additional Disease Information for LCE3E

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for LCE3E Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LCE3E Gene

Publications for LCE3E Gene

  1. Genome-wide pharmacogenomic analysis of response to treatment with antipsychotics. (PMID: 19721433) McClay JL … van den Oord EJ (Molecular psychiatry 2011) 3 40
  2. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4
  3. Late cornified envelope family in differentiating epithelia--response to calcium and ultraviolet irradiation. (PMID: 15854049) Jackson B … Byrne C (The Journal of investigative dermatology 2005) 3 4
  4. Differentially expressed late constituents of the epidermal cornified envelope. (PMID: 11698679) Marshall D … Byrne C (Proceedings of the National Academy of Sciences of the United States of America 2001) 2 3
  5. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3

Products for LCE3E Gene

Sources for LCE3E Gene