U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LCE3D late cornified envelope 3D [ Homo sapiens (human) ]

Gene ID: 84648, updated on 5-Aug-2022

Summary

Official Symbol
LCE3Dprovided by HGNC
Official Full Name
late cornified envelope 3Dprovided by HGNC
Primary source
HGNC:HGNC:16615
See related
Ensembl:ENSG00000163202 MIM:612616; AllianceGenome:HGNC:16615
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LEP16; SPRL6A; SPRL6B
Summary
Predicted to be involved in keratinization. Predicted to be located in cytosol. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in skin (RPKM 6.3) and esophagus (RPKM 3.1) See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See LCE3D in Genome Data Viewer
Location:
1q21.3
Exon count:
2
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (152579381..152580516, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (151715934..151717069, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (152551857..152552992, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene cysteine rich C-terminal 1 Neighboring gene late cornified envelope 3E Neighboring gene late cornified envelope 3C Neighboring gene late cornified envelope 3B

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
A genome-wide association study identifies new psoriasis susceptibility loci and an interaction between HLA-C and ERAP1.
EBI GWAS Catalog
Psoriasis genome-wide association study identifies susceptibility variants within LCE gene cluster at 1q21.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC126833

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in keratinization IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cytosol TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
late cornified envelope protein 3D
Names
late envelope protein 16
small proline rich-like (epidermal differentiation complex) 6A
small proline rich-like (epidermal differentiation complex) 6B
small proline-rich-like epidermal differentiation complex protein 6A
small proline-rich-like epidermal differentiation complex protein 6B

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_032563.2NP_115952.1  late cornified envelope protein 3D

    See identical proteins and their annotated locations for NP_115952.1

    Status: VALIDATED

    Source sequence(s)
    AB048288, AL356426
    Consensus CDS
    CCDS1014.1
    UniProtKB/Swiss-Prot
    Q3MIL1, Q9BYE3
    Related
    ENSP00000357776.3, ENST00000368787.4

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    152579381..152580516 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    151715934..151717069 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)