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Aliases for LCE3D Gene

Aliases for LCE3D Gene

  • Late Cornified Envelope 3D 2 3 5
  • Small Proline-Rich-Like Epidermal Differentiation Complex Protein 6A 3 4
  • Small Proline-Rich-Like Epidermal Differentiation Complex Protein 6B 3 4
  • Small Proline Rich-Like (Epidermal Differentiation Complex) 6B 2 3
  • Late Envelope Protein 16 3 4
  • SPRL6A 3 4
  • SPRL6B 3 4
  • LEP16 3 4
  • Small Proline Rich-Like (Epidermal Differentiation Complex) 6A 3

External Ids for LCE3D Gene

Previous HGNC Symbols for LCE3D Gene

  • SPRL6B
  • SPRL6A

Previous GeneCards Identifiers for LCE3D Gene

  • GC01M149364
  • GC01M150818
  • GC01M123925

Summaries for LCE3D Gene

GeneCards Summary for LCE3D Gene

LCE3D (Late Cornified Envelope 3D) is a Protein Coding gene. An important paralog of this gene is LCE3C.

UniProtKB/Swiss-Prot for LCE3D Gene

  • Precursors of the cornified envelope of the stratum corneum.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LCE3D Gene

Genomics for LCE3D Gene

Regulatory Elements for LCE3D Gene

Enhancers for LCE3D Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around LCE3D on UCSC Golden Path with GeneCards custom track

Genomic Location for LCE3D Gene

Chromosome:
1
Start:
152,579,381 bp from pter
End:
152,580,504 bp from pter
Size:
1,124 bases
Orientation:
Minus strand

Genomic View for LCE3D Gene

Genes around LCE3D on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCE3D Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCE3D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCE3D Gene

Proteins for LCE3D Gene

  • Protein details for LCE3D Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BYE3-LCE3D_HUMAN
    Recommended name:
    Late cornified envelope protein 3D
    Protein Accession:
    Q9BYE3
    Secondary Accessions:
    • Q3MIL1

    Protein attributes for LCE3D Gene

    Size:
    92 amino acids
    Molecular mass:
    9444 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • Belongs to the LCE cluster present on 1q21.

neXtProt entry for LCE3D Gene

Proteomics data for LCE3D Gene at MOPED

Post-translational modifications for LCE3D Gene

No Post-translational modifications

Other Protein References for LCE3D Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LCE3D Gene

Domains & Families for LCE3D Gene

Gene Families for LCE3D Gene

Protein Domains for LCE3D Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9BYE3

UniProtKB/Swiss-Prot:

LCE3D_HUMAN :
  • Belongs to the LCE family.
Family:
  • Belongs to the LCE family.
genes like me logo Genes that share domains with LCE3D: view

Function for LCE3D Gene

Molecular function for LCE3D Gene

UniProtKB/Swiss-Prot Function:
Precursors of the cornified envelope of the stratum corneum.
genes like me logo Genes that share phenotypes with LCE3D: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LCE3D Gene

Localization for LCE3D Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LCE3D Gene COMPARTMENTS Subcellular localization image for LCE3D gene
Compartment Confidence
extracellular 3
plasma membrane 3
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for LCE3D Gene

Pathways & Interactions for LCE3D Gene

SuperPathways for LCE3D Gene

No Data Available

Interacting Proteins for LCE3D Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000357776%0d%0a9606.ENSP00000377262%0d%0a9606.ENSP00000362931%0d%0a
Selected Interacting proteins: ENSP00000357776 for LCE3D Gene via STRING

Gene Ontology (GO) - Biological Process for LCE3D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008544 epidermis development IEA --
GO:0018149 peptide cross-linking IBA --
genes like me logo Genes that share ontologies with LCE3D: view

No data available for Pathways by source and SIGNOR curated interactions for LCE3D Gene

Drugs & Compounds for LCE3D Gene

No Compound Related Data Available

Transcripts for LCE3D Gene

mRNA/cDNA for LCE3D Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(8) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LCE3D Gene

Late cornified envelope 3D:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LCE3D Gene

No ASD Table

Relevant External Links for LCE3D Gene

GeneLoc Exon Structure for
LCE3D
ECgene alternative splicing isoforms for
LCE3D

Expression for LCE3D Gene

mRNA expression in normal human tissues for LCE3D Gene

mRNA differential expression in normal tissues according to GTEx for LCE3D Gene

This gene is overexpressed in Cervix - Ectocervix (x23.0), Vagina (x17.6), and Skin - Sun Exposed (Lower leg) (x5.6).

Protein differential expression in normal tissues from HIPED for LCE3D Gene

This gene is overexpressed in Pancreatic juice (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LCE3D Gene



SOURCE GeneReport for Unigene cluster for LCE3D Gene Hs.244349

mRNA Expression by UniProt/SwissProt for LCE3D Gene

Q9BYE3-LCE3D_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 LCE3D: view

Protein tissue co-expression partners for LCE3D Gene

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for LCE3D Gene

Orthologs for LCE3D Gene

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

Orthologs for LCE3D Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LCE3D 36
  • 98 (a)
OneToOne
Species with no ortholog for LCE3D:
  • 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)
  • 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 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 LCE3D Gene

ENSEMBL:
Gene Tree for LCE3D (if available)
TreeFam:
Gene Tree for LCE3D (if available)

Paralogs for LCE3D Gene

Paralogs for LCE3D Gene

genes like me logo Genes that share paralogs with LCE3D: view

Variants for LCE3D Gene

Sequence variations from dbSNP and Humsavar for LCE3D Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs512208 - 152,579,809(-) TGGGG(G/T)CTGTG reference, missense
rs57201979 - 152,579,695(+) CAGAG(A/C/T)CCCCG reference, missense
rs4845313 -- 152,579,985(+) TTAGT(A/C)CAAAA intron-variant
rs4845314 -- 152,582,121(+) AAAAG(G/T)CAAAA upstream-variant-2KB
rs10749673 -- 152,581,437(+) CACCC(A/G)CCTCG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for LCE3D Gene

Variant ID Type Subtype PubMed ID
esv2750810 CNV Gain 17911159
dgv129e1 CNV Complex 17122850
dgv130e1 CNV Complex 17122850
dgv131e1 CNV Complex 17122850
dgv37n27 CNV Loss 19166990
dgv38n27 CNV Loss 19166990
dgv39n27 CNV Loss 19166990
nsv470739 CNV Loss 18288195
nsv516961 CNV Loss 19592680
nsv872446 CNV Loss 21882294
nsv2888 CNV Loss 18451855
nsv437244 CNV Loss 16327808
nsv68 CNV Loss 15895083
esv33483 CNV Gain+Loss 17666407
dgv389n71 CNV Gain 21882294
dgv2n31 CNV Deletion 19718026

Variation tolerance for LCE3D Gene

Residual Variation Intolerance Score: 91.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.10; 61.11% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LCE3D Gene

Human Gene Mutation Database (HGMD)
LCE3D

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LCE3D Gene

Disorders for LCE3D Gene

Relevant External Links for LCE3D

Genetic Association Database (GAD)
LCE3D
Human Genome Epidemiology (HuGE) Navigator
LCE3D
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LCE3D

No disorders were found for LCE3D Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LCE3D Gene

Publications for LCE3D Gene

  1. Psoriasis genome-wide association study identifies susceptibility variants within LCE gene cluster at 1q21. (PMID: 19169255) Zhang X.J. … Liu J.J. (Nat. Genet. 2009) 3 48 67
  2. Differentially expressed late constituents of the epidermal cornified envelope. (PMID: 11698679) Marshall D. … Byrne C. (Proc. Natl. Acad. Sci. U.S.A. 2001) 2 3
  3. The protein interaction landscape of the human CMGC kinase group. (PMID: 23602568) Varjosalo M. … Gstaiger M. (Cell Rep 2013) 3
  4. Variants in MHC, LCE and IL12B have epistatic effects on psoriasis risk in Chinese population. (PMID: 21208785) Zheng H.F. … Zhang X.J. (J. Dermatol. Sci. 2011) 3
  5. A genome-wide association study identifies new psoriasis susceptibility loci and an interaction between HLA-C and ERAP1. (PMID: 20953190) . … Trembath R.C. (Nat. Genet. 2010) 3

Products for LCE3D Gene

Sources for LCE3D Gene

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