Aliases for LCE1C Gene

Aliases for LCE1C Gene

  • Late Cornified Envelope 1C 2 3 5
  • LEP3 2 3 4
  • Late Cornified Envelope Protein 1C 3 4
  • Late Envelope Protein 3 3 4
  • LCE1C 5

External Ids for LCE1C Gene

Previous GeneCards Identifiers for LCE1C Gene

  • GC01M149590
  • GC01M151043
  • GC01M124140

Summaries for LCE1C Gene

GeneCards Summary for LCE1C Gene

LCE1C (Late Cornified Envelope 1C) is a Protein Coding gene. Diseases associated with LCE1C include Psoriasis 3 and Psoriasis 4. Among its related pathways are Keratinization and Developmental Biology. An important paralog of this gene is LCE1B.

UniProtKB/Swiss-Prot Summary for LCE1C Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LCE1C Gene

Genomics for LCE1C Gene

GeneHancer (GH) Regulatory Elements Pubs


Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LCE1C

Top Transcription factor binding sites by QIAGEN in the LCE1C gene promoter:
  • AML1a
  • HEN1
  • NCX
  • p53
  • SEF-1 (1)
  • TBP
  • ZID

Genomic Locations for LCE1C Gene

Latest Assembly
chr1:152,804,832-152,806,651
(GRCh38/hg38)
Size:
1,820 bases
Orientation:
Minus strand

Previous Assembly
chr1:152,777,308-152,779,127
(GRCh37/hg19 by Entrez Gene)
Size:
1,820 bases
Orientation:
Minus strand

chr1:152,777,311-152,779,107
(GRCh37/hg19 by Ensembl)
Size:
1,797 bases
Orientation:
Minus strand

Genomic View for LCE1C Gene

Genes around LCE1C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCE1C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCE1C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCE1C Gene

Proteins for LCE1C Gene

  • Protein details for LCE1C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5T751-LCE1C_HUMAN
    Recommended name:
    Late cornified envelope protein 1C
    Protein Accession:
    Q5T751

    Protein attributes for LCE1C Gene

    Size:
    118 amino acids
    Molecular mass:
    11543 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • Belongs to the LCE cluster present on 1q21.

neXtProt entry for LCE1C Gene

Post-translational modifications for LCE1C Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LCE1C Gene

No data available for DME Specific Peptides for LCE1C Gene

Domains & Families for LCE1C Gene

Gene Families for LCE1C Gene

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

Protein Domains for LCE1C Gene

InterPro:

Suggested Antigen Peptide Sequences for LCE1C Gene

GenScript: Design optimal peptide antigens:
  • Late envelope protein 3 (LCE1C_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q5T751

UniProtKB/Swiss-Prot:

LCE1C_HUMAN :
  • Belongs to the LCE family.
Family:
  • Belongs to the LCE family.
genes like me logo Genes that share domains with LCE1C: view

Function for LCE1C Gene

Molecular function for LCE1C 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 LCE1C Gene

Gene Ontology (GO) - Molecular Function for LCE1C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 32296183
genes like me logo Genes that share ontologies with LCE1C: view
genes like me logo Genes that share phenotypes with LCE1C: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LCE1C

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LCE1C Gene

Localization for LCE1C Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for LCE1C Gene

Pathways & Interactions for LCE1C Gene

PathCards logo

SuperPathways for LCE1C Gene

genes like me logo Genes that share pathways with LCE1C: view

Pathways by source for LCE1C Gene

Gene Ontology (GO) - Biological Process for LCE1C 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 LCE1C: view

No data available for SIGNOR curated interactions for LCE1C Gene

Drugs & Compounds for LCE1C Gene

No Compound Related Data Available

Transcripts for LCE1C Gene

mRNA/cDNA for LCE1C Gene

2 REFSEQ mRNAs :
2 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 LCE1C

Alternative Splicing Database (ASD) splice patterns (SP) for LCE1C Gene

No ASD Table

Relevant External Links for LCE1C Gene

GeneLoc Exon Structure for
LCE1C

Expression for LCE1C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LCE1C Gene

mRNA differential expression in normal tissues according to GTEx for LCE1C Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x32.3) and Skin - Not Sun Exposed (Suprapubic) (x20.1).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LCE1C

SOURCE GeneReport for Unigene cluster for LCE1C Gene:

Hs.516429

mRNA Expression by UniProt/SwissProt for LCE1C Gene:

Q5T751-LCE1C_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 LCE1C: 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 LCE1C Gene

Orthologs for LCE1C Gene

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

Orthologs for LCE1C Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LCE1C 30
  • 99 (a)
OneToOne
Species where no ortholog for LCE1C 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 LCE1C Gene

ENSEMBL:
Gene Tree for LCE1C (if available)
TreeFam:
Gene Tree for LCE1C (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LCE1C: view image
Alliance of Genome Resources:
Additional Orthologs for LCE1C

Paralogs for LCE1C Gene

Paralogs for LCE1C Gene

genes like me logo Genes that share paralogs with LCE1C: view

Variants for LCE1C Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LCE1C Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs115724302 Benign: not provided 152,805,162(-) C/T
NM_178351.4(LCE1C):c.317G>A (p.Cys106Tyr)
MISSENSE
rs146157684 Benign: not provided 152,805,279(-) C/A
NM_178351.4(LCE1C):c.200G>T (p.Cys67Phe)
MISSENSE
rs2006940 -- p.Cys16Tyr

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LCE1C 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 LCE1C Gene

Variant ID Type Subtype PubMed ID
dgv105e212 CNV gain 25503493
dgv429n100 CNV gain 25217958
dgv432n100 CNV gain 25217958
dgv435n100 CNV gain 25217958
dgv437n100 CNV gain+loss 25217958
dgv438n100 CNV gain 25217958
dgv439n100 CNV gain 25217958
esv2758970 CNV gain+loss 17122850
esv2763813 CNV loss 21179565
nsv1004884 CNV gain 25217958
nsv1012573 CNV loss 25217958
nsv508615 CNV deletion 20534489
nsv547899 CNV gain 21841781

Variation tolerance for LCE1C Gene

Residual Variation Intolerance Score: 49.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.69; 86.47% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LCE1C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LCE1C
Leiden Open Variation Database (LOVD)
LCE1C

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LCE1C Gene

Disorders for LCE1C Gene

MalaCards: The human disease database

(2) MalaCards diseases for LCE1C Gene - From: COP

Disorder Aliases PubMed IDs
psoriasis 3
  • psoriasis 3, susceptibility to
psoriasis 4
  • psoriasis 4, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search LCE1C in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LCE1C

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with LCE1C: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LCE1C Gene

Publications for LCE1C Gene

  1. 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 40
  2. Variants in linkage disequilibrium with the late cornified envelope gene cluster deletion are associated with susceptibility to psoriatic arthritis. (PMID: 20643763) Bowes J … Barton A (Annals of the rheumatic diseases 2010) 3 40
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4
  4. 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
  5. 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

Products for LCE1C Gene

Sources for LCE1C Gene