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Aliases for LRRTM4 Gene

Aliases for LRRTM4 Gene

  • Leucine Rich Repeat Transmembrane Neuronal 4 2 3

External Ids for LRRTM4 Gene

Previous GeneCards Identifiers for LRRTM4 Gene

  • GC02M077701
  • GC02M077719
  • GC02M077718
  • GC02M077655
  • GC02M076830
  • GC02M076974

Summaries for LRRTM4 Gene

GeneCards Summary for LRRTM4 Gene

LRRTM4 (Leucine Rich Repeat Transmembrane Neuronal 4) is a Protein Coding gene. An important paralog of this gene is LRRTM2.

UniProtKB/Swiss-Prot for LRRTM4 Gene

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

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRTM4 Gene

Genomics for LRRTM4 Gene

Regulatory Elements for LRRTM4 Gene

Genomic Location for LRRTM4 Gene

Start:
76,747,719 bp from pter
End:
77,593,319 bp from pter
Size:
845,601 bases
Orientation:
Minus strand

Genomic View for LRRTM4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for LRRTM4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRTM4 Gene

Proteins for LRRTM4 Gene

  • Protein details for LRRTM4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86VH4-LRRT4_HUMAN
    Recommended name:
    Leucine-rich repeat transmembrane neuronal protein 4
    Protein Accession:
    Q86VH4
    Secondary Accessions:
    • Q4FZ98
    • Q6UXJ7

    Protein attributes for LRRTM4 Gene

    Size:
    590 amino acids
    Molecular mass:
    67217 Da
    Quaternary structure:
    • Peripherally associated with AMPAR complex. AMPAR complex consists of an inner core made of 4 pore-forming GluA/GRIA proteins (GRIA1, GRIA2, GRIA3 and GRIA4) and 4 major auxiliary subunits arranged in a twofold symmetry. One of the two pairs of distinct binding sites is occupied either by CNIH2, CNIH3 or CACNG2, CACNG3. The other harbors CACNG2, CACNG3, CACNG4, CACNG8 or GSG1L. This inner core of AMPAR complex is complemented by outer core constituents binding directly to the GluA/GRIA proteins at sites distinct from the interaction sites of the inner core constituents. Outer core constituents include at least PRRT1, PRRT2, CKAMP44/SHISA9, FRRS1L and NRN1. The proteins of the inner and outer core serve as a platform for other, more peripherally associated AMPAR constituents, including LRRTM4. Alone or in combination, these auxiliary subunits control the gating and pharmacology of the AMPAR complex and profoundly impact their biogenesis and protein processing (By similarity).

    Alternative splice isoforms for LRRTM4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRRTM4 Gene

Proteomics data for LRRTM4 Gene at MOPED

Post-translational modifications for LRRTM4 Gene

  • Glycosylation at Asn58, Asn126, and Asn291
  • Modification sites at PhosphoSitePlus

Antibody Products

  • Santa Cruz Biotechnology (SCBT) Antibodies for LRRTM4

No data available for DME Specific Peptides for LRRTM4 Gene

Domains for LRRTM4 Gene

Graphical View of Domain Structure for InterPro Entry

Q86VH4

UniProtKB/Swiss-Prot:

LRRT4_HUMAN :
  • Q86VH4
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 LRRTM4: view

No data available for Gene Families for LRRTM4 Gene

Function for LRRTM4 Gene

Molecular function for LRRTM4 Gene

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

Gene Ontology (GO) - Molecular Function for LRRTM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
GO:0043395 heparan sulfate proteoglycan binding IEA --
genes like me logo Genes that share ontologies with LRRTM4: view

Phenotypes for LRRTM4 Gene

MGI mutant phenotypes for LRRTM4:
inferred from 1 alleles
GenomeRNAi human phenotypes for LRRTM4:
genes like me logo Genes that share phenotypes with LRRTM4: view

Animal Models for LRRTM4 Gene

MGI Knock Outs for LRRTM4:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LRRTM4

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for LRRTM4 Gene

Localization for LRRTM4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRTM4 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 LRRTM4 Gene COMPARTMENTS Subcellular localization image for LRRTM4 gene
Compartment Confidence
plasma membrane 5
golgi apparatus 2
endoplasmic reticulum 1
extracellular 1

Gene Ontology (GO) - Cellular Components for LRRTM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030054 cell junction IEA --
GO:0032281 alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex IEA --
GO:0045211 postsynaptic membrane IEA --
genes like me logo Genes that share ontologies with LRRTM4: view

Pathways for LRRTM4 Gene

SuperPathways for LRRTM4 Gene

No Data Available

Interacting Proteins for LRRTM4 Gene

Gene Ontology (GO) - Biological Process for LRRTM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0072578 neurotransmitter-gated ion channel clustering --
GO:0097113 alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor clustering IEA --
GO:1901629 regulation of presynaptic membrane organization IEA --
genes like me logo Genes that share ontologies with LRRTM4: view

No data available for Pathways by source for LRRTM4 Gene

Transcripts for LRRTM4 Gene

Unigene Clusters for LRRTM4 Gene

Leucine rich repeat transmembrane neuronal 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LRRTM4

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for LRRTM4
  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRTM4 Gene

No ASD Table

Relevant External Links for LRRTM4 Gene

GeneLoc Exon Structure for
LRRTM4
ECgene alternative splicing isoforms for
LRRTM4

Expression for LRRTM4 Gene

mRNA expression in normal human tissues for LRRTM4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRRTM4 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (8.1), Brain - Cortex (7.5), and Brain - Anterior cingulate cortex (BA24) (7.0).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for LRRTM4 Gene

SOURCE GeneReport for Unigene cluster for LRRTM4 Gene Hs.285782

mRNA Expression by UniProt/SwissProt for LRRTM4 Gene

Q86VH4-LRRT4_HUMAN
Tissue specificity: Expressed in neuronal tissues.
genes like me logo Genes that share expressions with LRRTM4: view

In Situ Assay Products

Orthologs for LRRTM4 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRRTM4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRTM4 35
  • 99.66 (n)
  • 100 (a)
LRRTM4 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LRRTM4 35
  • 93.84 (n)
  • 95.25 (a)
LRRTM4 36
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LRRTM4 35
  • 94.35 (n)
  • 96.1 (a)
LRRTM4 36
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lrrtm4 35
  • 87.72 (n)
  • 94.57 (a)
Lrrtm4 16
Lrrtm4 36
  • 96 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LRRTM4 36
  • 92 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LRRTM4 36
  • 81 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrtm4 35
  • 87.91 (n)
  • 94.41 (a)
chicken
(Gallus gallus)
Aves LRRTM4 35
  • 81.98 (n)
  • 88.31 (a)
LRRTM4 36
  • 90 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRRTM4 36
  • 88 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrtm4 35
  • 74.86 (n)
  • 80.17 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC100333709 35
  • 66.32 (n)
  • 71.6 (a)
LRRTM4 (1 of 4) 36
  • 67 (a)
OneToMany
LRRTM4 (3 of 4) 36
  • 57 (a)
OneToMany
lrrtm4l1 36
  • 51 (a)
OneToMany
lrrtm4l2 36
  • 58 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta haf 36
  • 9 (a)
OneToMany
Species with no ortholog for LRRTM4:
  • 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 LRRTM4 Gene

ENSEMBL:
Gene Tree for LRRTM4 (if available)
TreeFam:
Gene Tree for LRRTM4 (if available)

Paralogs for LRRTM4 Gene

Paralogs for LRRTM4 Gene

Selected SIMAP similar genes for LRRTM4 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with LRRTM4: view

Variants for LRRTM4 Gene

Sequence variations from dbSNP and Humsavar for LRRTM4 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs17089 -- 77,021,515(-) TATCA(C/T)GTTTT intron-variant
rs167055 -- 77,318,314(+) ACACT(C/T)TTATT intron-variant
rs167056 -- 77,318,027(+) tttta(A/G)acgga intron-variant
rs167057 -- 77,378,093(-) ataca(A/G)tttta intron-variant
rs176542 -- 77,345,178(+) aaaga(C/T)aaaac intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LRRTM4 Gene

Variant ID Type Subtype PubMed ID
nsv874319 CNV Loss 21882294
nsv874320 CNV Loss 21882294
nsv458263 CNV Loss 19166990
nsv520715 CNV Gain 19592680
dgv4172n71 CNV Loss 21882294
dgv4173n71 CNV Loss 21882294
nsv214053 CNV Insertion 16902084
esv2720234 CNV Deletion 23290073
nsv458274 CNV Loss 19166990
nsv874326 CNV Loss 21882294
nsv523910 CNV Loss 19592680
dgv4174n71 CNV Loss 21882294
nsv525625 CNV Loss 19592680
nsv874329 CNV Gain+Loss 21882294
esv27593 CNV Loss 19812545
esv2720235 CNV Deletion 23290073
nsv834266 CNV Gain 17160897
nsv818054 CNV Loss 17921354
dgv1205e1 CNV Complex 17122850
nsv10046 CNV Loss 18304495
esv2658076 CNV Deletion 23128226
nsv519950 CNV Gain 19592680
nsv829468 CNV Loss 20364138
nsv874331 CNV Loss 21882294
nsv458285 CNV Loss 19166990
nsv874332 CNV Loss 21882294
nsv523873 CNV Loss 19592680
nsv526121 CNV Loss 19592680
nsv524535 CNV Gain 19592680
nsv874333 CNV Gain 21882294
nsv458296 CNV Loss 19166990
nsv874334 CNV Loss 21882294
nsv518504 CNV Loss 19592680
nsv2789 CNV Loss 18451855
esv8705 CNV Gain 19470904
esv2676549 CNV Deletion 23128226
esv2672350 CNV Deletion 23128226
nsv2790 CNV Insertion 18451855
nsv874335 CNV Gain 21882294
esv2720236 CNV Deletion 23290073
nsv508094 CNV Loss 20534489
esv2090944 CNV Deletion 18987734
esv2720237 CNV Deletion 23290073
nsv874336 CNV Gain 21882294
esv2609871 CNV Deletion 19546169
nsv834267 CNV Loss 17160897
nsv470473 CNV Loss 18288195
nsv874337 CNV Loss 21882294
esv2659916 CNV Deletion 23128226
nsv818055 CNV Loss 17921354
dgv709e199 CNV Deletion 23128226
esv27982 CNV Loss 19812545
nsv520560 CNV Loss 19592680
nsv2791 CNV Insertion 18451855
nsv874338 CNV Loss 21882294
nsv874339 CNV Loss 21882294
nsv508095 CNV Loss 20534489
nsv874340 CNV Loss 21882294

Relevant External Links for LRRTM4 Gene

HapMap Linkage Disequilibrium report
LRRTM4
Human Gene Mutation Database (HGMD)
LRRTM4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRTM4 Gene

Disorders for LRRTM4 Gene

Relevant External Links for LRRTM4

Genetic Association Database (GAD)
LRRTM4
Human Genome Epidemiology (HuGE) Navigator
LRRTM4
genes like me logo Genes that share disorders with LRRTM4: view

No data available for UniProtKB/Swiss-Prot for LRRTM4 Gene

Publications for LRRTM4 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 23
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 3 4
  3. 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 48
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3

Products for LRRTM4 Gene

Sources for LRRTM4 Gene

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