Aliases for LRRC3C Gene

Aliases for LRRC3C Gene

  • Leucine Rich Repeat Containing 3C 2 3 5
  • Leucine-Rich Repeat-Containing Protein 3C 3 4
  • Putative LRRC3-Like Protein ENSP00000367157 3
  • LRRC3C 5

External Ids for LRRC3C Gene

Previous GeneCards Identifiers for LRRC3C Gene

  • GC17P038100
  • GC17P039941
  • GC17P039929
  • GC17P039931

Summaries for LRRC3C Gene

GeneCards Summary for LRRC3C Gene

LRRC3C (Leucine Rich Repeat Containing 3C) is a Protein Coding gene. Diseases associated with LRRC3C include Excessive Tearing. An important paralog of this gene is LRRC3.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LRRC3C Gene

Genomics for LRRC3C Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LRRC3C 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
GH17J039978 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 11.7 +53.0 53004 4.6 SP1 HNRNPL CREB1 GATAD2A CTCF ATF7 PRDM10 ZNF629 TFE3 SIX5 PSMD3 lnc-MED24-7 MED1 CDK12 SMARCE1 GSDMA MSL1 MED24 SNORD124 LRRC3C
GH17J039859 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE dbSUPER 11.8 -63.3 -63293 9.7 SP1 GATAD2A ZNF629 TFE3 ZNF512 SOX13 IKZF1 NFKBIZ CTCF POLR2A IKZF3 ZPBP2 GSDMB ORMDL3 MED24 TMEM99 MSL1 MED1 GSDMA CDK12
GH17J039790 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 12.5 -134.2 -134221 6.6 SP1 PRDM10 RELA TCF12 IKZF2 POLR2A TRIM22 EED ARID3A HMBOX1 GSDMB GSDMA IKZF3 LRRC3C ZPBP2 GRB7 MIEN1 ORMDL3 PGAP3 ERBB2
GH17J039694 Promoter/Enhancer 1.6 Ensembl ENCODE CraniofacialAtlas dbSUPER 9.9 -231.9 -231943 2.9 HNRNPL GATAD2A ATF7 REST TFE3 SOX13 NFKBIZ KDM1A ZSCAN4 RBFOX2 PGAP3 LN812234 CDK12 LOC105371762 SNORA21 MED1 SMARCE1 RPL23 MIEN1 IGFBP4
GH17J039958 Enhancer 1.1 ENCODE CraniofacialAtlas 12.2 +31.3 31271 0.9 GATAD2A CTCF TFE3 FOXA1 ZNF143 PKNOX1 RXRB REST RAD21 IRF2 GSDMA PSMD3 LRRC3C ORMDL3 GSDMB RF00017-2374
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRRC3C on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LRRC3C

Genomic Locations for LRRC3C Gene

Genomic Locations for LRRC3C Gene
chr17:39,927,722-39,944,999
(GRCh38/hg38)
Size:
17,278 bases
Orientation:
Plus strand
chr17:38,097,727-38,101,000
(GRCh37/hg19)
Size:
3,274 bases
Orientation:
Plus strand

Genomic View for LRRC3C Gene

Genes around LRRC3C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC3C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC3C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC3C Gene

Proteins for LRRC3C Gene

  • Protein details for LRRC3C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NJW4-LRR3C_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 3C
    Protein Accession:
    A6NJW4

    Protein attributes for LRRC3C Gene

    Size:
    275 amino acids
    Molecular mass:
    29314 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=EAW60623.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for LRRC3C Gene

Post-translational modifications for LRRC3C Gene

  • Glycosylation at Asn156
  • Modification sites at PhosphoSitePlus

Other Protein References for LRRC3C Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LRRC3C Gene

Domains & Families for LRRC3C Gene

Gene Families for LRRC3C Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for LRRC3C Gene

Suggested Antigen Peptide Sequences for LRRC3C Gene

GenScript: Design optimal peptide antigens:
  • Leucine-rich repeat-containing protein 3C (LRR3C_HUMAN)

Graphical View of Domain Structure for InterPro Entry

A6NJW4

UniProtKB/Swiss-Prot:

LRR3C_HUMAN :
  • Belongs to the LRRC3 family.
Family:
  • Belongs to the LRRC3 family.
genes like me logo Genes that share domains with LRRC3C: view

Function for LRRC3C Gene

Phenotypes From GWAS Catalog for LRRC3C Gene

Gene Ontology (GO) - Molecular Function for LRRC3C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with LRRC3C: view

Animal Model Products

CRISPR Products

miRNA for LRRC3C Gene

miRTarBase miRNAs that target LRRC3C

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LRRC3C

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRRC3C Gene

Localization for LRRC3C Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRC3C Gene

Membrane. Single-pass membrane protein.

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 LRRC3C gene
Compartment Confidence
extracellular 4
plasma membrane 2

Gene Ontology (GO) - Cellular Components for LRRC3C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0031012 extracellular matrix IBA 21873635
genes like me logo Genes that share ontologies with LRRC3C: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LRRC3C Gene

Pathways & Interactions for LRRC3C Gene

PathCards logo

SuperPathways for LRRC3C Gene

No Data Available

Interacting Proteins for LRRC3C Gene

Gene Ontology (GO) - Biological Process for LRRC3C Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRRC3C Gene

Drugs & Compounds for LRRC3C Gene

No Compound Related Data Available

Transcripts for LRRC3C Gene

mRNA/cDNA for LRRC3C Gene

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

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LRRC3C

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC3C Gene

No ASD Table

Relevant External Links for LRRC3C Gene

GeneLoc Exon Structure for
LRRC3C

Expression for LRRC3C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRRC3C Gene

mRNA differential expression in normal tissues according to GTEx for LRRC3C Gene

This gene is overexpressed in Testis (x9.7).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LRRC3C

SOURCE GeneReport for Unigene cluster for LRRC3C Gene:

Hs.145136
genes like me logo Genes that share expression patterns with LRRC3C: view

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 , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRRC3C Gene

Orthologs for LRRC3C Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRRC3C Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LRRC3C 30 31
  • 98.55 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LRRC3C 30 31
  • 87.17 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia LRRC3C 30 31
  • 86.62 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Gm12 30
  • 83.47 (n)
Lrrc3c 17
Rat
(Rattus norvegicus)
Mammalia Lrrc3c 30
  • 83.33 (n)
Oppossum
(Monodelphis domestica)
Mammalia LRRC3C 31
  • 72 (a)
OneToOne
Chicken
(Gallus gallus)
Aves LRRC3C 31
  • 45 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia LRRC3C 31
  • 44 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii LRRC3C (2 of 2) 31
  • 42 (a)
OneToMany
LRRC3C (1 of 2) 31
  • 36 (a)
OneToMany
Species where no ortholog for LRRC3C 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)
  • 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)
  • Fruit Fly (Drosophila melanogaster)
  • 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)
  • Platypus (Ornithorhynchus anatinus)
  • 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)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for LRRC3C Gene

ENSEMBL:
Gene Tree for LRRC3C (if available)
TreeFam:
Gene Tree for LRRC3C (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LRRC3C: view image

Paralogs for LRRC3C Gene

(3) SIMAP similar genes for LRRC3C Gene using alignment to 1 proteins:

  • LRR3C_HUMAN

Pseudogenes.org Pseudogenes for LRRC3C Gene

genes like me logo Genes that share paralogs with LRRC3C: view

Variants for LRRC3C Gene

Additional dbSNP identifiers (rs#s) for LRRC3C Gene

Structural Variations from Database of Genomic Variants (DGV) for LRRC3C Gene

Variant ID Type Subtype PubMed ID
esv3573064 CNV gain 25503493
nsv1146669 OTHER inversion 26484159

Variation tolerance for LRRC3C Gene

Gene Damage Index Score: 3.38; 54.11% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRRC3C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC3C

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 LRRC3C Gene

Disorders for LRRC3C Gene

MalaCards: The human disease database

(1) MalaCards diseases for LRRC3C Gene - From: DISEASES

Disorder Aliases PubMed IDs
excessive tearing
  • epiphora
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with LRRC3C: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LRRC3C Gene

Publications for LRRC3C Gene

  1. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PMID: 16625196) Zody MC … Nusbaum C (Nature 2006) 3 4
  2. Gene Expression-Genotype Analysis Implicates GSDMA, GSDMB, and LRRC3C as Contributors to Inflammatory Bowel Disease Susceptibility. (PMID: 26484354) Söderman J … Almer S (BioMed research international 2015) 3
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3
  4. A genome-wide meta-analysis identifies 22 loci associated with eight hematological parameters in the HaemGen consortium. (PMID: 19820697) Soranzo N … Gieger C (Nature genetics 2009) 3
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3

Products for LRRC3C Gene

  • Signalway ELISA kits for LRRC3C

Sources for LRRC3C Gene