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Aliases for LRRTM1 Gene

Aliases for LRRTM1 Gene

  • Leucine Rich Repeat Transmembrane Neuronal 1 2 3 5

External Ids for LRRTM1 Gene

Previous GeneCards Identifiers for LRRTM1 Gene

  • GC02U900202
  • GC02M080490
  • GC02M080499
  • GC02M080427
  • GC02M080382

Summaries for LRRTM1 Gene

GeneCards Summary for LRRTM1 Gene

LRRTM1 (Leucine Rich Repeat Transmembrane Neuronal 1) is a Protein Coding gene. Diseases associated with LRRTM1 include schizophrenia. An important paralog of this gene is LRRTM2.

UniProtKB/Swiss-Prot for LRRTM1 Gene

  • Exhibits strong synaptogenic activity, restricted to excitatory presynaptic differentiation, acting at both pre- and postsynaptic level.

Gene Wiki entry for LRRTM1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRTM1 Gene

Genomics for LRRTM1 Gene

Regulatory Elements for LRRTM1 Gene

Enhancers for LRRTM1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around LRRTM1 on UCSC Golden Path with GeneCards custom track

Genomic Location for LRRTM1 Gene

Chromosome:
2
Start:
80,288,280 bp from pter
End:
80,304,749 bp from pter
Size:
16,470 bases
Orientation:
Minus strand

Genomic View for LRRTM1 Gene

Genes around LRRTM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRTM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRTM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRTM1 Gene

Proteins for LRRTM1 Gene

  • Protein details for LRRTM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86UE6-LRRT1_HUMAN
    Recommended name:
    Leucine-rich repeat transmembrane neuronal protein 1
    Protein Accession:
    Q86UE6
    Secondary Accessions:
    • A8K397
    • D6W5K1
    • Q96DN1

    Protein attributes for LRRTM1 Gene

    Size:
    522 amino acids
    Molecular mass:
    58641 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • This gene is imprinted, being predominantly expressed from the paternal allele and showing a variable pattern of maternal down-regulation. May be associated paternally with handedness and schizophrenia.

neXtProt entry for LRRTM1 Gene

Proteomics data for LRRTM1 Gene at MOPED

Post-translational modifications for LRRTM1 Gene

  • Glycosylation at Asn 56, Asn 63, Asn 130, and Asn 380
  • Modification sites at PhosphoSitePlus

Other Protein References for LRRTM1 Gene

Antibody Products

No data available for DME Specific Peptides for LRRTM1 Gene

Domains & Families for LRRTM1 Gene

Suggested Antigen Peptide Sequences for LRRTM1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q86UE6

UniProtKB/Swiss-Prot:

LRRT1_HUMAN :
  • Contains 1 LRRCT domain.
  • Belongs to the LRRTM family.
  • Contains 10 LRR (leucine-rich) repeats.
Domain:
  • Contains 1 LRRCT domain.
  • Contains 1 LRRNT domain.
Family:
  • Belongs to the LRRTM family.
Similarity:
  • Contains 10 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with LRRTM1: view

No data available for Gene Families for LRRTM1 Gene

Function for LRRTM1 Gene

Molecular function for LRRTM1 Gene

UniProtKB/Swiss-Prot Function:
Exhibits strong synaptogenic activity, restricted to excitatory presynaptic differentiation, acting at both pre- and postsynaptic level.

Gene Ontology (GO) - Molecular Function for LRRTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with LRRTM1: view
genes like me logo Genes that share phenotypes with LRRTM1: view

Animal Models for LRRTM1 Gene

MGI Knock Outs for LRRTM1:

Animal Model Products

  • Taconic Biosciences Mouse Models for LRRTM1

miRNA for LRRTM1 Gene

miRTarBase miRNAs that target LRRTM1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LRRTM1 Gene

Localization for LRRTM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRTM1 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
Jensen Localization Image for LRRTM1 Gene COMPARTMENTS Subcellular localization image for LRRTM1 gene
Compartment Confidence
endoplasmic reticulum 5
plasma membrane 4
extracellular 1
lysosome 1
peroxisome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for LRRTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0045211 postsynaptic membrane IEA --
genes like me logo Genes that share ontologies with LRRTM1: view

Pathways & Interactions for LRRTM1 Gene

SuperPathways for LRRTM1 Gene

No Data Available

Interacting Proteins for LRRTM1 Gene

Gene Ontology (GO) - Biological Process for LRRTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006469 negative regulation of protein kinase activity IBA --
GO:0008150 biological_process ND --
GO:0051965 positive regulation of synapse assembly IEA --
GO:0060291 long-term synaptic potentiation IEA --
GO:1904030 negative regulation of cyclin-dependent protein kinase activity IBA --
genes like me logo Genes that share ontologies with LRRTM1: view

No data available for Pathways by source and SIGNOR curated interactions for LRRTM1 Gene

Drugs & Compounds for LRRTM1 Gene

No Compound Related Data Available

Transcripts for LRRTM1 Gene

Unigene Clusters for LRRTM1 Gene

Leucine rich repeat transmembrane neuronal 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LRRTM1 Gene

ExUns: 1a · 1b ^ 2a · 2b
SP1:
SP2:

Relevant External Links for LRRTM1 Gene

GeneLoc Exon Structure for
LRRTM1
ECgene alternative splicing isoforms for
LRRTM1

Expression for LRRTM1 Gene

mRNA expression in normal human tissues for LRRTM1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRRTM1 Gene

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (x7.8), Brain - Putamen (basal ganglia) (x6.1), Brain - Caudate (basal ganglia) (x5.6), Brain - Hippocampus (x4.9), Brain - Cortex (x4.9), Brain - Anterior cingulate cortex (BA24) (x4.3), and Brain - Frontal Cortex (BA9) (x4.1).

Protein differential expression in normal tissues from HIPED for LRRTM1 Gene

This gene is overexpressed in Platelet (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LRRTM1 Gene



SOURCE GeneReport for Unigene cluster for LRRTM1 Gene Hs.591580

mRNA Expression by UniProt/SwissProt for LRRTM1 Gene

Q86UE6-LRRT1_HUMAN
Tissue specificity: Predominantly expressed in forebrain regions including thalamus and cerebral cortex.
genes like me logo Genes that share expression patterns with LRRTM1: view

Protein tissue co-expression partners for LRRTM1 Gene

- Elite partner

Primer Products

Orthologs for LRRTM1 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRRTM1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LRRTM1 35
  • 95.52 (n)
  • 97.31 (a)
dog
(Canis familiaris)
Mammalia LRRTM1 35
  • 95.98 (n)
  • 97.89 (a)
LRRTM1 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lrrtm1 35
  • 92.19 (n)
  • 97.31 (a)
Lrrtm1 16
Lrrtm1 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia LRRTM1 35
  • 99.81 (n)
  • 99.81 (a)
LRRTM1 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia LRRTM1 35
  • 91.76 (n)
  • 96.55 (a)
oppossum
(Monodelphis domestica)
Mammalia LRRTM1 36
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LRRTM1 36
  • 85 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRRTM1 35
  • 79.21 (n)
  • 83.11 (a)
LRRTM1 36
  • 83 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRRTM1 36
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrtm1 35
  • 74.97 (n)
  • 79.73 (a)
zebrafish
(Danio rerio)
Actinopterygii lrrtm1 35
  • 66.41 (n)
  • 66.67 (a)
lrrtm1 36
  • 65 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta haf 36
  • 9 (a)
OneToMany
Species with no ortholog for LRRTM1:
  • 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)

Evolution for LRRTM1 Gene

ENSEMBL:
Gene Tree for LRRTM1 (if available)
TreeFam:
Gene Tree for LRRTM1 (if available)

Paralogs for LRRTM1 Gene

(7) SIMAP similar genes for LRRTM1 Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for LRRTM1 Gene

genes like me logo Genes that share paralogs with LRRTM1: view

Variants for LRRTM1 Gene

Sequence variations from dbSNP and Humsavar for LRRTM1 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
VAR_022681 -

Structural Variations from Database of Genomic Variants (DGV) for LRRTM1 Gene

Variant ID Type Subtype PubMed ID
dgv1208e1 CNV Complex 17122850
dgv1209e1 CNV Complex 17122850

Variation tolerance for LRRTM1 Gene

Residual Variation Intolerance Score: 21.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.25; 92.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRRTM1 Gene

HapMap Linkage Disequilibrium report
LRRTM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRTM1 Gene

Disorders for LRRTM1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LRRTM1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
schizophrenia
  • schizophrenia 12
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for LRRTM1

Genetic Association Database (GAD)
LRRTM1
Human Genome Epidemiology (HuGE) Navigator
LRRTM1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRRTM1
genes like me logo Genes that share disorders with LRRTM1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LRRTM1 Gene

Publications for LRRTM1 Gene

  1. A novel gene family encoding leucine-rich repeat transmembrane proteins differentially expressed in the nervous system. (PMID: 12676565) Lauren J. … Timmusk T.T. (Genomics 2003) 2 3 4 67
  2. The imprinted gene LRRTM1 mediates schizotypy and handedness in a nonclinical population. (PMID: 24785688) Leach E.L. … Crespi B.J. (J. Hum. Genet. 2014) 3
  3. Hypomethylation of the paternally inherited LRRTM1 promoter linked to schizophrenia. (PMID: 25111784) Brucato N. … Francks C. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2014) 3
  4. Family-based analysis of genetic variation underlying psychosis-inducing effects of cannabis: sibling analysis and proband follow-up. (PMID: 21041608) van Winkel R. (Arch. Gen. Psychiatry 2011) 3
  5. Bidirectional transcription from human LRRTM2/CTNNA1 and LRRTM1/CTNNA2 gene loci leads to expression of N-terminally truncated CTNNA1 and CTNNA2 isoforms. (PMID: 21708131) Kask M. … Timmusk T. (Biochem. Biophys. Res. Commun. 2011) 3

Products for LRRTM1 Gene

Sources for LRRTM1 Gene

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