Aliases for LRIG3 Gene

Aliases for LRIG3 Gene

  • Leucine Rich Repeats And Immunoglobulin Like Domains 3 2 3 5
  • Leucine-Rich Repeats And Immunoglobulin-Like Domains Protein 3 3 4
  • LIG-3 3 4
  • LIG3 3 4
  • FLJ90440 2
  • KIAA3016 2
  • LRIG3 5

External Ids for LRIG3 Gene

Previous GeneCards Identifiers for LRIG3 Gene

  • GC12M057553
  • GC12M057554
  • GC12M059265
  • GC12M056314

Summaries for LRIG3 Gene

GeneCards Summary for LRIG3 Gene

LRIG3 (Leucine Rich Repeats And Immunoglobulin Like Domains 3) is a Protein Coding gene. Diseases associated with LRIG3 include Cervical Adenocarcinoma and Urofacial Syndrome 1. An important paralog of this gene is LRIG2.

UniProtKB/Swiss-Prot Summary for LRIG3 Gene

  • May play a role in craniofacial and inner ear morphogenesis during embryonic development. May act within the otic vesicle epithelium to control formation of the lateral semicircular canal in the inner ear, possibly by restricting the expression of NTN1 (By similarity).

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LRIG3 Gene

Genomics for LRIG3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LRIG3 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
GH12J058913 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 257 +1.6 1612 9.9 ZSCAN16 MXD4 FEZF1 CEBPA ZEB1 ZIC2 KDM6A CEBPB RAD51 CTCF LRIG3 ENSG00000257443 LOC105369791 lnc-CTDSP2-8 piR-34822-068
GH12J058527 Enhancer 0.8 FANTOM5 ENCODE 15 +390.6 390599 3.9 FOXA2 MAFF RXRA ZNF316 MAFK FOXA1 JUND MAFG BHLHE40 POLR2A LRIG3 CTDSP2 HSALNG0091710 piR-47086-087 ATP23
GH12J058887 Enhancer 0.7 Ensembl ENCODE 17.1 +32.2 32236 1.5 RXRA ZBTB33 ZNF316 MAFK HNF4A RAD21 REST lnc-CTDSP2-7 LRIG3 piR-34822-068 ATP23
GH12J058949 Enhancer 0.6 Ensembl ENCODE 17.9 -30.1 -30103 1.7 ZIC2 SCRT1 ZNF398 YY2 FOS piR-31932 piR-53029-026 LRIG3 LOC105369791 ENSG00000257443 SLC16A7
GH12J058893 Enhancer 0.7 Ensembl ENCODE 12.1 +26.3 26318 3.6 FEZF1 ZNF843 ZBTB48 REST SCRT1 ZNF133 SP7 MAFK OSR2 PRDM10 LRIG3 lnc-CTDSP2-7 piR-34822-068 ATP23
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRIG3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LRIG3

Top Transcription factor binding sites by QIAGEN in the LRIG3 gene promoter:
  • aMEF-2
  • FOXD3
  • MEF-2A
  • Nkx2-5
  • Pax-4a

Genomic Locations for LRIG3 Gene

Latest Assembly
chr12:58,872,149-58,920,519
(GRCh38/hg38)
Size:
48,371 bases
Orientation:
Minus strand

Previous Assembly
chr12:59,265,937-59,314,285
(GRCh37/hg19 by Entrez Gene)
Size:
48,349 bases
Orientation:
Minus strand

chr12:59,265,931-59,314,303
(GRCh37/hg19 by Ensembl)
Size:
48,373 bases
Orientation:
Minus strand

Genomic View for LRIG3 Gene

Genes around LRIG3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRIG3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRIG3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRIG3 Gene

Proteins for LRIG3 Gene

  • Protein details for LRIG3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6UXM1-LRIG3_HUMAN
    Recommended name:
    Leucine-rich repeats and immunoglobulin-like domains protein 3
    Protein Accession:
    Q6UXM1
    Secondary Accessions:
    • Q6UXL7
    • Q8NC72

    Protein attributes for LRIG3 Gene

    Size:
    1119 amino acids
    Molecular mass:
    123434 Da
    Quaternary structure:
    • Interacts with EGFR, ERBB2 and ERBB4 (in vitro).
    SequenceCaution:
    • Sequence=BAC11295.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for LRIG3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRIG3 Gene

Post-translational modifications for LRIG3 Gene

  • Glycosylation at Asn122, Asn156, Asn274, Asn442, Asn469, Asn515, Asn688, Asn729, Asn905, Asn987, Asn999, and Asn1016
  • Modification sites at PhosphoSitePlus

Other Protein References for LRIG3 Gene

No data available for DME Specific Peptides for LRIG3 Gene

Domains & Families for LRIG3 Gene

Gene Families for LRIG3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for LRIG3 Gene

InterPro:
Blocks:
  • Immunoglobulin subtype
  • Cysteine-rich flanking region, N-terminal
  • Leucine-rich repeat signature
  • Cysteine-rich flanking region, C-terminal
ProtoNet:

Suggested Antigen Peptide Sequences for LRIG3 Gene

GenScript: Design optimal peptide antigens:
  • Leucine-rich repeats and immunoglobulin-like domains protein 3 (LRIG3_HUMAN)
genes like me logo Genes that share domains with LRIG3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LRIG3 Gene

Function for LRIG3 Gene

Molecular function for LRIG3 Gene

UniProtKB/Swiss-Prot Function:
May play a role in craniofacial and inner ear morphogenesis during embryonic development. May act within the otic vesicle epithelium to control formation of the lateral semicircular canal in the inner ear, possibly by restricting the expression of NTN1 (By similarity).

Phenotypes From GWAS Catalog for LRIG3 Gene

Gene Ontology (GO) - Molecular Function for LRIG3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA,IPI 23723069
genes like me logo Genes that share ontologies with LRIG3: view
genes like me logo Genes that share phenotypes with LRIG3: view

Animal Models for LRIG3 Gene

MGI Knock Outs for LRIG3:

Animal Models for research

  • Taconic Biosciences Mouse Models for LRIG3

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LRIG3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LRIG3 Gene

Localization for LRIG3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRIG3 Gene

Cell membrane. Single-pass type I membrane protein. Cytoplasmic vesicle membrane. Single-pass type I membrane protein. Note=Detected in cytoplasmic vesicles when coexpressed with ERBB4. {ECO:0000250}.

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 LRIG3 gene
Compartment Confidence
plasma membrane 4
extracellular 4
cytosol 3
cytoskeleton 1
nucleus 1
endoplasmic reticulum 1
endosome 1
lysosome 1
peroxisome 0
golgi apparatus 0

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for LRIG3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA 21873635
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030659 cytoplasmic vesicle membrane IEA --
genes like me logo Genes that share ontologies with LRIG3: view

Pathways & Interactions for LRIG3 Gene

PathCards logo

SuperPathways for LRIG3 Gene

No Data Available

SIGNOR curated interactions for LRIG3 Gene

Activates:
Is inactivated by:

Gene Ontology (GO) - Biological Process for LRIG3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0032474 otolith morphogenesis IEA --
genes like me logo Genes that share ontologies with LRIG3: view

No data available for Pathways by source for LRIG3 Gene

Drugs & Compounds for LRIG3 Gene

No Compound Related Data Available

Transcripts for LRIG3 Gene

mRNA/cDNA for LRIG3 Gene

2 REFSEQ mRNAs :
13 NCBI additional mRNA sequence :
9 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 LRIG3

Alternative Splicing Database (ASD) splice patterns (SP) for LRIG3 Gene

No ASD Table

Relevant External Links for LRIG3 Gene

GeneLoc Exon Structure for
LRIG3

Expression for LRIG3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRIG3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LRIG3 Gene

This gene is overexpressed in Platelet (53.8) and Heart (14.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LRIG3 Gene



Protein tissue co-expression partners for LRIG3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LRIG3

SOURCE GeneReport for Unigene cluster for LRIG3 Gene:

Hs.253736

mRNA Expression by UniProt/SwissProt for LRIG3 Gene:

Q6UXM1-LRIG3_HUMAN
Tissue specificity: Widely expressed.

Evidence on tissue expression from TISSUES for LRIG3 Gene

  • Skin(2.2)
genes like me logo Genes that share expression patterns with LRIG3: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRIG3 Gene

Orthologs for LRIG3 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRIG3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LRIG3 30 31
  • 99.29 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia LRIG3 30 31
  • 90.93 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LRIG3 30 31
  • 89.19 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Lrig3 30
  • 83.93 (n)
Mouse
(Mus musculus)
Mammalia Lrig3 30 17 31
  • 83.65 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia LRIG3 31
  • 82 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia LRIG3 31
  • 81 (a)
OneToOne
Chicken
(Gallus gallus)
Aves LRIG3 30 31
  • 76.06 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia LRIG3 31
  • 75 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia lrig3 30
  • 69.98 (n)
Zebrafish
(Danio rerio)
Actinopterygii lrig3 30
  • 64.84 (n)
LRIG3 31
  • 60 (a)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta lbk 30 31
  • 47.47 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009688 30
  • 27.09 (n)
Worm
(Caenorhabditis elegans)
Secernentea sma-10 30 31
  • 44.38 (n)
OneToMany
Species where no ortholog for LRIG3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • 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)
  • Wheat (Triticum aestivum)

Evolution for LRIG3 Gene

ENSEMBL:
Gene Tree for LRIG3 (if available)
TreeFam:
Gene Tree for LRIG3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LRIG3: view image

Paralogs for LRIG3 Gene

(35) SIMAP similar genes for LRIG3 Gene using alignment to 4 proteins:

  • LRIG3_HUMAN
  • C9K080_HUMAN
  • F8VYZ5_HUMAN
  • H0YID8_HUMAN
genes like me logo Genes that share paralogs with LRIG3: view

Variants for LRIG3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LRIG3 Gene

SNP ID Clinical significance and condition Chr 12 pos Variation AA Info Type
rs138577440 Likely Benign: not provided 58,886,850(-) T/C
NM_153377.4(LRIG3):c.1132A>G (p.Met378Val)
MISSENSE
rs182093691 Benign: not provided 58,876,446(-) A/T
NM_153377.4(LRIG3):c.2694T>A (p.Ser898Arg)
MISSENSE
rs530909599 Benign: not provided 58,876,497(-) CTGG/C
NM_001136051.2(LRIG3):c.2454_2456CCA[2] (p.His820del)
INFRAME_DELETION

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LRIG3 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 LRIG3 Gene

Variant ID Type Subtype PubMed ID
esv2759902 CNV gain 17122850
nsv733 CNV insertion 18451855

Variation tolerance for LRIG3 Gene

Residual Variation Intolerance Score: 15.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.85; 48.17% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRIG3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRIG3

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRIG3 Gene

Disorders for LRIG3 Gene

MalaCards: The human disease database

(3) MalaCards diseases for LRIG3 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
cervical adenocarcinoma
  • adenocarcinoma cervix uteri
urofacial syndrome 1
  • ufs1
charcot-marie-tooth disease
  • cmt - charcot-marie-tooth disease
- elite association - COSMIC cancer census association via MalaCards
Search LRIG3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LRIG3

Genetic Association Database
(GAD)
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 LRIG3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LRIG3 Gene

Publications for LRIG3 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 41
  2. Association of genome-wide variation with the risk of incident heart failure in adults of European and African ancestry: a prospective meta-analysis from the cohorts for heart and aging research in genomic epidemiology (CHARGE) consortium. (PMID: 20445134) Smith NL … Vasan RS (Circulation. Cardiovascular genetics 2010) 3 41
  3. A comprehensive study of the association between the EGFR and ERBB2 genes and glioma risk. (PMID: 20446891) Andersson U … Melin B (Acta oncologica (Stockholm, Sweden) 2010) 3 41
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  5. The LRIG gene family has three vertebrate paralogs widely expressed in human and mouse tissues and a homolog in Ascidiacea. (PMID: 15203213) Guo D … Hedman H (Genomics 2004) 3 4

Products for LRIG3 Gene

Sources for LRIG3 Gene