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Aliases for LRRN1 Gene

Aliases for LRRN1 Gene

  • Leucine Rich Repeat Neuronal 1 2 3 5
  • Fibronectin Type III, Immunoglobulin And Leucine Rich Repeat Domains 3 2 3
  • Neuronal Leucine-Rich Repeat Protein 1 3 4
  • NLRR-1 3 4
  • Leucine-Rich Repeat Neuronal Protein 1 3
  • KIAA1497 4
  • FIGLER3 3

External Ids for LRRN1 Gene

Previous GeneCards Identifiers for LRRN1 Gene

  • GC07M098704
  • GC03P003833
  • GC03P003816

Summaries for LRRN1 Gene

GeneCards Summary for LRRN1 Gene

LRRN1 (Leucine Rich Repeat Neuronal 1) is a Protein Coding gene. An important paralog of this gene is LRRN3.

Gene Wiki entry for LRRN1 Gene

Additional gene information for LRRN1 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRN1 Gene

Genomics for LRRN1 Gene

GeneHancer (GH) Regulatory Elements for LRRN1 Gene

Promoters and enhancers for LRRN1 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
GH03J003798 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 656.6 +0.9 908 4.2 CTCF MXI1 USF1 SIN3A ZIC2 ZNF335 GLIS2 POLR2A EZH2 ZBTB20 LRRN1 PIR40545 LOC100130207 SUMF1
GH03J003625 Enhancer 0.5 ENCODE 9.9 -173.8 -173750 0.1 SCRT1 GATA3 SCRT2 FOXA1 ENSG00000223727 LRRN1 SUMF1 GC03M003375
GH03J003738 Enhancer 0.3 ENCODE 16.3 -59.6 -59603 1.7 SREBF1 LRRN1 SUMF1 LOC100130207 ENSG00000223727
GH03J002895 Enhancer 0.5 ENCODE 5.1 -902.1 -902102 2.7 SP1 HNF4A FOS YY1 LRRN1 LOC105376926 DNAJC19P4 CNTN4
GH03J003806 Enhancer 0.4 dbSUPER 5.6 +7.7 7742 0.8 BACH1 NFE2 LRRN1 PIR40545 LOC100130207 SUMF1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRRN1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LRRN1 gene promoter:
  • PPAR-gamma1
  • Pax-4a
  • PPAR-gamma2
  • POU2F1a
  • POU2F1
  • GR-beta
  • GR
  • GR-alpha
  • Pax-6
  • AML1a

Genomic Locations for LRRN1 Gene

Genomic Locations for LRRN1 Gene
chr3:3,799,402-3,849,834
(GRCh38/hg38)
Size:
50,433 bases
Orientation:
Plus strand
chr3:3,841,121-3,889,387
(GRCh37/hg19)
Size:
48,267 bases
Orientation:
Plus strand

Genomic View for LRRN1 Gene

Genes around LRRN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRN1 Gene

Proteins for LRRN1 Gene

  • Protein details for LRRN1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6UXK5-LRRN1_HUMAN
    Recommended name:
    Leucine-rich repeat neuronal protein 1
    Protein Accession:
    Q6UXK5
    Secondary Accessions:
    • Q3LID5
    • Q8IYV5
    • Q9H8V1
    • Q9P231

    Protein attributes for LRRN1 Gene

    Size:
    716 amino acids
    Molecular mass:
    80716 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA96021.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB14500.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for LRRN1 Gene

Post-translational modifications for LRRN1 Gene

  • Glycosylation at posLast=571571, isoforms=517, posLast=385385, posLast=117117, and posLast=9696
  • Modification sites at PhosphoSitePlus

Other Protein References for LRRN1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LRRN1 Gene

Domains & Families for LRRN1 Gene

Gene Families for LRRN1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for LRRN1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LRRN1: view

No data available for UniProtKB/Swiss-Prot for LRRN1 Gene

Function for LRRN1 Gene

Phenotypes From GWAS Catalog for LRRN1 Gene

genes like me logo Genes that share phenotypes with LRRN1: view

Animal Models for LRRN1 Gene

MGI Knock Outs for LRRN1:

Animal Model Products

  • Taconic Biosciences Mouse Models for LRRN1

miRNA for LRRN1 Gene

miRTarBase miRNAs that target LRRN1

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LRRN1 Gene

Localization for LRRN1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRN1 Gene

Membrane; Single-pass type I 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 LRRN1 gene
Compartment Confidence
extracellular 4
plasma membrane 3
cytosol 2
peroxisome 1
endoplasmic reticulum 1
lysosome 1

Gene Ontology (GO) - Cellular Components for LRRN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LRRN1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LRRN1 Gene

Pathways & Interactions for LRRN1 Gene

SuperPathways for LRRN1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRRN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007409 NOT axonogenesis IBA --
GO:0051965 positive regulation of synapse assembly IEA --
genes like me logo Genes that share ontologies with LRRN1: view

No data available for Pathways by source and SIGNOR curated interactions for LRRN1 Gene

Drugs & Compounds for LRRN1 Gene

No Compound Related Data Available

Transcripts for LRRN1 Gene

mRNA/cDNA for LRRN1 Gene

Unigene Clusters for LRRN1 Gene

Leucine rich repeat neuronal 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRN1 Gene

No ASD Table

Relevant External Links for LRRN1 Gene

GeneLoc Exon Structure for
LRRN1
ECgene alternative splicing isoforms for
LRRN1

Expression for LRRN1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LRRN1 Gene

mRNA differential expression in normal tissues according to GTEx for LRRN1 Gene

This gene is overexpressed in Brain - Caudate (basal ganglia) (x5.2), Brain - Nucleus accumbens (basal ganglia) (x5.0), and Brain - Putamen (basal ganglia) (x4.6).

Protein differential expression in normal tissues from HIPED for LRRN1 Gene

This gene is overexpressed in Bone (61.0) and Fetal Brain (7.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LRRN1 Gene



Protein tissue co-expression partners for LRRN1 Gene

NURSA nuclear receptor signaling pathways regulating expression of LRRN1 Gene:

LRRN1

SOURCE GeneReport for Unigene cluster for LRRN1 Gene:

Hs.163244

Evidence on tissue expression from TISSUES for LRRN1 Gene

  • Nervous system(4.6)
genes like me logo Genes that share expression patterns with LRRN1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRRN1 Gene

Orthologs for LRRN1 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRRN1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRN1 34 33
  • 99.53 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LRRN1 34
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LRRN1 34
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LRRN1 34 33
  • 91.85 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LRRN1 34 33
  • 91.81 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrn1 33
  • 87.85 (n)
mouse
(Mus musculus)
Mammalia Lrrn1 16 34 33
  • 87.52 (n)
chicken
(Gallus gallus)
Aves LRRN1 34 33
  • 80.49 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRRN1 34
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100492182 33
  • 72.11 (n)
Str.5362 33
African clawed frog
(Xenopus laevis)
Amphibia MGC68797 33
zebrafish
(Danio rerio)
Actinopterygii lrrn1 34 33
  • 71.55 (n)
OneToOne
Dr.29044 33
fruit fly
(Drosophila melanogaster)
Insecta CG6860 35
  • 42 (a)
caps 34
  • 24 (a)
ManyToMany
CG14762 34
  • 22 (a)
ManyToMany
trn 34
  • 21 (a)
ManyToMany
Fili 34
  • 18 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea lron-11 34
  • 21 (a)
OneToMany
Species where no ortholog for LRRN1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 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)
  • wheat (Triticum aestivum)

Evolution for LRRN1 Gene

ENSEMBL:
Gene Tree for LRRN1 (if available)
TreeFam:
Gene Tree for LRRN1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LRRN1: view image

Paralogs for LRRN1 Gene

(2) SIMAP similar genes for LRRN1 Gene using alignment to 1 proteins:

  • LRRN1_HUMAN
genes like me logo Genes that share paralogs with LRRN1: view

Variants for LRRN1 Gene

Sequence variations from dbSNP and Humsavar for LRRN1 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000002496 -- 3,814,464(+) G/A intron_variant
rs1000033847 -- 3,814,721(+) G/A intron_variant
rs1000047155 -- 3,824,533(+) C/T intron_variant
rs1000142493 -- 3,846,322(+) A/G coding_sequence_variant, missense_variant
rs1000161019 -- 3,836,086(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LRRN1 Gene

Variant ID Type Subtype PubMed ID
dgv2486n106 CNV deletion 24896259
esv1006927 CNV deletion 20482838
esv1213048 CNV deletion 17803354
esv1787606 CNV deletion 17803354
esv2724816 CNV deletion 23290073
esv2724818 CNV deletion 23290073
esv2724819 CNV deletion 23290073
esv2724820 CNV deletion 23290073
esv2752001 CNV gain 17911159
esv3561374 CNV deletion 23714750
esv3608 CNV loss 18987735
esv3893637 CNV loss 25118596
esv6311 CNV loss 19470904
nsv1000460 CNV gain 25217958
nsv1011650 CNV loss 25217958
nsv1072809 CNV deletion 25765185
nsv1112378 CNV deletion 24896259
nsv236590 CNV deletion 16902084
nsv589396 CNV gain 21841781
nsv956812 CNV deletion 24416366

Variation tolerance for LRRN1 Gene

Residual Variation Intolerance Score: 16.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.44; 54.74% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRRN1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRN1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRN1 Gene

Disorders for LRRN1 Gene

Additional Disease Information for LRRN1

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

No disorders were found for LRRN1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRN1 Gene

Publications for LRRN1 Gene

  1. Prediction of the coding sequences of unidentified human genes. XVII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10819331) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 2 3 4 58
  2. N-MYC promotes cell proliferation through a direct transactivation of neuronal leucine-rich repeat protein-1 (NLRR1) gene in neuroblastoma. (PMID: 18591937) Hossain MS … Nakagawara A (Oncogene 2008) 3 22 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  5. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PMID: 15340161) Zhang Z … Henzel WJ (Protein science : a publication of the Protein Society 2004) 3 4 58

Products for LRRN1 Gene

Sources for LRRN1 Gene

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