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Aliases for LRRC20 Gene

Aliases for LRRC20 Gene

  • Leucine Rich Repeat Containing 20 2 3 5

External Ids for LRRC20 Gene

Previous GeneCards Identifiers for LRRC20 Gene

  • GC10M071404
  • GC10M071728
  • GC10M072058
  • GC10M066052

Summaries for LRRC20 Gene

GeneCards Summary for LRRC20 Gene

LRRC20 (Leucine Rich Repeat Containing 20) is a Protein Coding gene.

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRC20 Gene

Genomics for LRRC20 Gene

Regulatory Elements for LRRC20 Gene

Enhancers for LRRC20 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH10G070362 1.6 Ensembl ENCODE dbSUPER 15.6 +18.6 18626 2.4 HDGF ARID4B SIN3A FEZF1 ZNF2 ZNF143 ZNF207 KLF13 DEK ZNF263 LRRC20 NPFFR1
GH10G070376 1.4 Ensembl ENCODE dbSUPER 17.7 +4.9 4900 2.2 PKNOX1 SIN3A FEZF1 GATA2 KLF7 FOS TSHZ1 ZNF623 ZNF579 MBD2 LRRC20 NPFFR1
GH10G070380 1.3 ENCODE dbSUPER 16.3 +0.5 518 2.8 HDGF ARNT CREB3L1 SIN3A FEZF1 ZNF2 ZNF766 ZNF143 FOS SP3 LRRC20 NPFFR1
GH10G070357 1.3 Ensembl ENCODE dbSUPER 15.7 +24.5 24475 1.7 PKNOX1 USF1 JUN GLI4 RELA ZNF121 ZNF316 POLR2A NFE2 RELB LRRC20 EIF4EBP2 NPFFR1 PPA1 NODAL UNC5B-AS1
GH10G070403 1.4 ENCODE dbSUPER 12.6 -22.6 -22553 3.5 HNRNPUL1 HDGF PKNOX1 FOXA2 MLX CREB3L1 ARNT ARID4B SIN3A DMAP1 LRRC20 PALD1 NODAL EIF4EBP2 GC10M070403
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LRRC20 on UCSC Golden Path with GeneCards custom track

Promoters for LRRC20 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000029392 150 1401 ARNT CREB3L1 SIN3A FEZF1 ZNF2 ZNF766 ELK1 ZNF143 SP3 NFYC

Genomic Location for LRRC20 Gene

Chromosome:
10
Start:
70,298,970 bp from pter
End:
70,382,650 bp from pter
Size:
83,681 bases
Orientation:
Minus strand

Genomic View for LRRC20 Gene

Genes around LRRC20 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC20 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC20 Gene

Proteins for LRRC20 Gene

  • Protein details for LRRC20 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TCA0-LRC20_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 20
    Protein Accession:
    Q8TCA0
    Secondary Accessions:
    • Q5T6D4
    • Q5T6D6
    • Q9NVA6
    • Q9NVG3

    Protein attributes for LRRC20 Gene

    Size:
    184 amino acids
    Molecular mass:
    20509 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA91849.1; Type=Erroneous termination; Positions=185; Note=Translated as stop.; Evidence={ECO:0000305};

    Alternative splice isoforms for LRRC20 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRRC20 Gene

Post-translational modifications for LRRC20 Gene

  • Ubiquitination at posLast=4343
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LRRC20 Gene

Domains & Families for LRRC20 Gene

Protein Domains for LRRC20 Gene

Suggested Antigen Peptide Sequences for LRRC20 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LRRC20: view

No data available for Gene Families and UniProtKB/Swiss-Prot for LRRC20 Gene

Function for LRRC20 Gene

Gene Ontology (GO) - Molecular Function for LRRC20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with LRRC20: view

Phenotypes for LRRC20 Gene

GenomeRNAi human phenotypes for LRRC20:
genes like me logo Genes that share phenotypes with LRRC20: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LRRC20

CRISPR Products

miRNA for LRRC20 Gene

miRTarBase miRNAs that target LRRC20

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRRC20 Gene

Localization for LRRC20 Gene

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 LRRC20 gene
Compartment Confidence
cytosol 4
nucleus 3
peroxisome 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for LRRC20 Gene

Pathways & Interactions for LRRC20 Gene

SuperPathways for LRRC20 Gene

No Data Available

Interacting Proteins for LRRC20 Gene

Gene Ontology (GO) - Biological Process for LRRC20 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRRC20 Gene

Drugs & Compounds for LRRC20 Gene

No Compound Related Data Available

Transcripts for LRRC20 Gene

Unigene Clusters for LRRC20 Gene

Leucine rich repeat containing 20:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC20 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d · 7e · 7f
SP1: - - - - - -
SP2: - - - - -
SP3: - - -
SP4: - - - - - - -
SP5: - - - - - - -
SP6: - - - - - - -
SP7: - - - - - - - -
SP8: - - - - - - - -
SP9:
SP10: -

Relevant External Links for LRRC20 Gene

GeneLoc Exon Structure for
LRRC20
ECgene alternative splicing isoforms for
LRRC20

Expression for LRRC20 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LRRC20 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRRC20 Gene

This gene is overexpressed in Muscle - Skeletal (x11.6).

Protein differential expression in normal tissues from HIPED for LRRC20 Gene

This gene is overexpressed in Tonsil (27.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LRRC20 Gene



Protein tissue co-expression partners for LRRC20 Gene

NURSA nuclear receptor signaling pathways regulating expression of LRRC20 Gene:

LRRC20

SOURCE GeneReport for Unigene cluster for LRRC20 Gene:

Hs.7778

Evidence on tissue expression from TISSUES for LRRC20 Gene

  • Nervous system(3.4)
  • Muscle(2)
genes like me logo Genes that share expression patterns with LRRC20: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRRC20 Gene

Orthologs for LRRC20 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRRC20 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRC20 34 35
  • 99.82 (n)
dog
(Canis familiaris)
Mammalia LRRC20 34 35
  • 90.58 (n)
cow
(Bos Taurus)
Mammalia LRRC20 34 35
  • 88.95 (n)
rat
(Rattus norvegicus)
Mammalia Lrrc20 34
  • 86.41 (n)
mouse
(Mus musculus)
Mammalia Lrrc20 34 16 35
  • 84.6 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LRRC20 35
  • 84 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LRRC20 35
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRRC20 34
  • 70.97 (n)
lizard
(Anolis carolinensis)
Reptilia LRRC20 35
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrc20 34
  • 58.33 (n)
zebrafish
(Danio rerio)
Actinopterygii lrrc20 34 35
  • 61.29 (n)
fruit fly
(Drosophila melanogaster)
Insecta Sclp 35
  • 15 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea K08E7.8 35
  • 25 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 28 (a)
OneToOne
Species where no ortholog for LRRC20 was found in the sources mined by GeneCards:
  • 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)
  • 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 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 LRRC20 Gene

ENSEMBL:
Gene Tree for LRRC20 (if available)
TreeFam:
Gene Tree for LRRC20 (if available)

Paralogs for LRRC20 Gene

No data available for Paralogs for LRRC20 Gene

Variants for LRRC20 Gene

Sequence variations from dbSNP and Humsavar for LRRC20 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs1000067477 -- 70,345,474(+) GCATT(A/T)AAAAA intron-variant
rs1000128580 -- 70,372,673(+) TCCTG(A/C)CCTTG intron-variant
rs1000132474 -- 70,369,623(+) AAAAA(A/C)AAAAA intron-variant
rs1000148166 -- 70,304,917(+) CGGTG(A/G)CTCAC intron-variant
rs1000174158 -- 70,334,726(+) CCAGG(A/C)ACCAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LRRC20 Gene

Variant ID Type Subtype PubMed ID
dgv922n100 CNV gain 25217958
esv1000318 CNV deletion 20482838
esv1276689 CNV insertion 17803354
esv32737 CNV gain+loss 17666407
esv3623764 CNV loss 21293372
nsv1041698 CNV gain 25217958
nsv1042216 CNV gain 25217958
nsv1043245 CNV loss 25217958
nsv507560 OTHER sequence alteration 20534489
nsv831908 CNV gain 17160897

Variation tolerance for LRRC20 Gene

Residual Variation Intolerance Score: 44.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.19; 24.02% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRRC20 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC20

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRC20 Gene

Disorders for LRRC20 Gene

Relevant External Links for LRRC20

Genetic Association Database (GAD)
LRRC20
Human Genome Epidemiology (HuGE) Navigator
LRRC20
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRRC20

No disorders were found for LRRC20 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRC20 Gene

Publications for LRRC20 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  2. Trait-stratified genome-wide association study identifies novel and diverse genetic associations with serologic and cytokine phenotypes in systemic lupus erythematosus. (PMID: 20659327) Kariuki S.N. … Niewold T.B. (Arthritis Res. Ther. 2010) 3 46 64
  3. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A. … Goate A. (Am. J. Hum. Genet. 2006) 3 46 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The DNA sequence and comparative analysis of human chromosome 10. (PMID: 15164054) Deloukas P. … Rogers J. (Nature 2004) 3 4 64

Products for LRRC20 Gene

Sources for LRRC20 Gene

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