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Aliases for LRRTM3 Gene

Aliases for LRRTM3 Gene

  • Leucine Rich Repeat Transmembrane Neuronal 3 2 3 5

External Ids for LRRTM3 Gene

Previous GeneCards Identifiers for LRRTM3 Gene

  • GC10U900142
  • GC10P068031
  • GC10P068030
  • GC10P068355
  • GC10P068685
  • GC10P062684

Summaries for LRRTM3 Gene

GeneCards Summary for LRRTM3 Gene

LRRTM3 (Leucine Rich Repeat Transmembrane Neuronal 3) is a Protein Coding gene. Among its related pathways are Protein-protein interactions at synapses and Transmission across Chemical Synapses. An important paralog of this gene is LRRTM4.

UniProtKB/Swiss-Prot for LRRTM3 Gene

  • Exhibits a limited synaptogenic activity in vitro, restricted to excitatory presynaptic differentiation (By similarity). May play a role in the development and maintenance of the vertebrate nervous system.

Additional gene information for LRRTM3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRTM3 Gene

Genomics for LRRTM3 Gene

Regulatory Elements for LRRTM3 Gene

Enhancers for LRRTM3 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
GH10H066961 0.3 FANTOM5 10 +35.8 35826 0 LRRTM3 LOC101928961
GH10H067043 0.3 FANTOM5 7.9 +117.1 117133 0 LRRTM3 GC10P067038 ENSG00000225299
GH10H066716 0.4 ENCODE 5.3 -208.5 -208519 2 MAFK LRRTM3 GC10P066636 ENSG00000277056
GH10H067042 0.3 FANTOM5 6.5 +116.4 116443 0 LRRTM3 GC10P067038 ENSG00000225299
GH10H066995 0.3 FANTOM5 6.3 +69.5 69478 0 LRRTM3 LOC101928961
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LRRTM3 on UCSC Golden Path with GeneCards custom track

Genomic Location for LRRTM3 Gene

Chromosome:
10
Start:
66,926,006 bp from pter
End:
67,101,551 bp from pter
Size:
175,546 bases
Orientation:
Plus strand

Genomic View for LRRTM3 Gene

Genes around LRRTM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRTM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRTM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRTM3 Gene

Proteins for LRRTM3 Gene

  • Protein details for LRRTM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86VH5-LRRT3_HUMAN
    Recommended name:
    Leucine-rich repeat transmembrane neuronal protein 3
    Protein Accession:
    Q86VH5
    Secondary Accessions:
    • A8K2A3
    • Q2NKX7
    • Q6N0A3

    Protein attributes for LRRTM3 Gene

    Size:
    581 amino acids
    Molecular mass:
    65896 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for LRRTM3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRRTM3 Gene

Post-translational modifications for LRRTM3 Gene

  • Glycosylation at posLast=126126 and Asn357
  • Modification sites at PhosphoSitePlus

Other Protein References for LRRTM3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LRRTM3 Gene

Domains & Families for LRRTM3 Gene

Gene Families for LRRTM3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for LRRTM3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q86VH5

UniProtKB/Swiss-Prot:

LRRT3_HUMAN :
  • Belongs to the LRRTM family.
Family:
  • Belongs to the LRRTM family.
genes like me logo Genes that share domains with LRRTM3: view

Function for LRRTM3 Gene

Molecular function for LRRTM3 Gene

UniProtKB/Swiss-Prot Function:
Exhibits a limited synaptogenic activity in vitro, restricted to excitatory presynaptic differentiation (By similarity). May play a role in the development and maintenance of the vertebrate nervous system.

Phenotypes From GWAS Catalog for LRRTM3 Gene

Gene Ontology (GO) - Molecular Function for LRRTM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004860 protein kinase inhibitor activity IBA --
genes like me logo Genes that share ontologies with LRRTM3: view

Phenotypes for LRRTM3 Gene

genes like me logo Genes that share phenotypes with LRRTM3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LRRTM3

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for LRRTM3
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LRRTM3 Gene

Localization for LRRTM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRTM3 Gene

Cell membrane; Single-pass type I membrane protein. Cell junction, synapse, postsynaptic cell 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 LRRTM3 gene
Compartment Confidence
plasma membrane 4
extracellular 2
peroxisome 1
endoplasmic reticulum 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for LRRTM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
genes like me logo Genes that share ontologies with LRRTM3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LRRTM3 Gene

Pathways & Interactions for LRRTM3 Gene

genes like me logo Genes that share pathways with LRRTM3: view

Pathways by source for LRRTM3 Gene

Gene Ontology (GO) - Biological Process for LRRTM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006469 negative regulation of protein kinase activity IBA --
GO:0019221 cytokine-mediated signaling pathway IBA --
GO:0046426 negative regulation of JAK-STAT cascade IBA --
GO:0051965 positive regulation of synapse assembly IEA --
GO:1902004 positive regulation of beta-amyloid formation IMP 17098871
genes like me logo Genes that share ontologies with LRRTM3: view

No data available for SIGNOR curated interactions for LRRTM3 Gene

Drugs & Compounds for LRRTM3 Gene

No Compound Related Data Available

Transcripts for LRRTM3 Gene

mRNA/cDNA for LRRTM3 Gene

(1) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(20) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LRRTM3 Gene

Leucine rich repeat transmembrane neuronal 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for LRRTM3
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for LRRTM3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b
SP1:
SP2: -
SP3:
SP4: - - -

Relevant External Links for LRRTM3 Gene

GeneLoc Exon Structure for
LRRTM3
ECgene alternative splicing isoforms for
LRRTM3

Expression for LRRTM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LRRTM3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRRTM3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x6.0), Brain - Nucleus accumbens (basal ganglia) (x5.4), Brain - Anterior cingulate cortex (BA24) (x5.3), Brain - Caudate (basal ganglia) (x4.6), Brain - Putamen (basal ganglia) (x4.5), and Brain - Cortex (x4.4).

Protein differential expression in normal tissues from HIPED for LRRTM3 Gene

This gene is overexpressed in Testis (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LRRTM3 Gene



Protein tissue co-expression partners for LRRTM3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LRRTM3 Gene:

LRRTM3

SOURCE GeneReport for Unigene cluster for LRRTM3 Gene:

Hs.652155

mRNA Expression by UniProt/SwissProt for LRRTM3 Gene:

Q86VH5-LRRT3_HUMAN
Tissue specificity: Expressed in neuronal tissues.

Evidence on tissue expression from TISSUES for LRRTM3 Gene

  • Nervous system(4.7)
genes like me logo Genes that share expression patterns with LRRTM3: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LRRTM3 Gene

Orthologs for LRRTM3 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRRTM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRTM3 33 34
  • 99.83 (n)
oppossum
(Monodelphis domestica)
Mammalia LRRTM3 34
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LRRTM3 33 34
  • 96.56 (n)
cow
(Bos Taurus)
Mammalia LRRTM3 33 34
  • 96.35 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LRRTM3 34
  • 95 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrtm3 33
  • 91.22 (n)
mouse
(Mus musculus)
Mammalia Lrrtm3 33 16 34
  • 91.16 (n)
chicken
(Gallus gallus)
Aves LRRTM3 33 34
  • 87.38 (n)
lizard
(Anolis carolinensis)
Reptilia LRRTM3 34
  • 95 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrtm3 33
  • 72.84 (n)
fruit fly
(Drosophila melanogaster)
Insecta haf 34
  • 9 (a)
OneToMany
Species where no ortholog for LRRTM3 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 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LRRTM3 Gene

ENSEMBL:
Gene Tree for LRRTM3 (if available)
TreeFam:
Gene Tree for LRRTM3 (if available)

Paralogs for LRRTM3 Gene

(3) SIMAP similar genes for LRRTM3 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with LRRTM3: view

Variants for LRRTM3 Gene

Sequence variations from dbSNP and Humsavar for LRRTM3 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs1000041377 -- 67,077,861(+) TTAAT(-/AAAG)AAAAG intron-variant
rs1000049278 -- 67,099,054(+) GTAGA(C/T)GGTAA intron-variant, nc-transcript-variant, utr-variant-3-prime
rs1000052119 -- 66,952,938(+) GCAAG(G/T)TATCC intron-variant
rs1000076433 -- 67,073,394(+) TTATC(G/T)CCCTT intron-variant
rs1000078165 -- 67,015,662(+) CTAGA(A/G)CAGAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LRRTM3 Gene

Variant ID Type Subtype PubMed ID
dgv33e55 CNV gain 17911159
dgv916n100 CNV gain 25217958
esv2676584 CNV deletion 23128226
esv2737984 CNV deletion 23290073
esv2737995 CNV deletion 23290073
esv3382497 CNV insertion 20981092
esv3546441 CNV deletion 23714750
esv3623664 CNV loss 21293372
esv3623667 CNV loss 21293372
esv3623669 CNV loss 21293372
esv3623673 CNV loss 21293372
esv3891851 CNV loss 25118596
nsv1037295 CNV loss 25217958
nsv1045134 CNV loss 25217958
nsv1050214 CNV loss 25217958
nsv1125335 OTHER inversion 24896259
nsv1125503 CNV tandem duplication 24896259
nsv1134021 CNV deletion 24896259
nsv467351 CNV loss 19166990
nsv520745 CNV gain 19592680
nsv551411 CNV loss 21841781
nsv551412 CNV loss 21841781
nsv551413 CNV gain 21841781
nsv831905 CNV gain 17160897

Variation tolerance for LRRTM3 Gene

Residual Variation Intolerance Score: 23.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.47; 55.06% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRRTM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRTM3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRTM3 Gene

Disorders for LRRTM3 Gene

Relevant External Links for LRRTM3

Genetic Association Database (GAD)
LRRTM3
Human Genome Epidemiology (HuGE) Navigator
LRRTM3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRRTM3

No disorders were found for LRRTM3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRTM3 Gene

Publications for LRRTM3 Gene

  1. A novel gene family encoding leucine-rich repeat transmembrane proteins differentially expressed in the nervous system. (PMID: 12676565) Laurén J … Timmusk T (Genomics 2003) 2 3 4 60
  2. An association analysis of Alzheimer disease candidate genes detects an ancestral risk haplotype clade in ACE and putative multilocus association between ACE, A2M, and LRRTM3. (PMID: 19105203) Edwards TL … Ritchie MD (American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics 2009) 3 45 60
  3. 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 60
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 60
  5. Association of LRRTM3 polymorphisms with late-onset Alzheimer's disease in Han Chinese. (PMID: 24463050) Wang J … Tan L (Experimental gerontology 2014) 3 60

Products for LRRTM3 Gene

Sources for LRRTM3 Gene

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