Aliases for LRTM2 Gene

Aliases for LRTM2 Gene

  • Leucine Rich Repeats And Transmembrane Domains 2 2 3 5
  • Leucine-Rich Repeat And Transmembrane Domain-Containing Protein 2 3 4
  • LRTM2 5

External Ids for LRTM2 Gene

Previous GeneCards Identifiers for LRTM2 Gene

  • GC12U900540
  • GC12P001800
  • GC12P001929

Summaries for LRTM2 Gene

GeneCards Summary for LRTM2 Gene

LRTM2 (Leucine Rich Repeats And Transmembrane Domains 2) is a Protein Coding gene. Diseases associated with LRTM2 include Preretinal Fibrosis. An important paralog of this gene is LRFN2.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LRTM2 Gene

Genomics for LRTM2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LRTM2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12J001820 Promoter/Enhancer 0.8 EPDnew dbSUPER 600.7 +0.3 285 0.1 EZH2 POLR2A ZNF366 SIN3A LRTM2 lnc-ADIPOR2-2 piR-56759-098 piR-54764-098 lnc-LRTM2-8 CACNA2D4
GH12J001821 Enhancer 0.7 Ensembl dbSUPER 600.7 +1.6 1634 1.4 ZIC2 MNT KLF17 EZH2 BHLHE40 EGR2 ZNF148 LRTM2 lnc-ADIPOR2-2 lnc-LRTM2-8 CACNA2D4
GH12J001819 Enhancer 0.5 Ensembl dbSUPER 600.7 -0.9 -866 0.8 ZFHX2 EGR2 LRTM2 lnc-ADIPOR2-2 piR-36393-092 piR-31432-098 piR-45504-096 piR-43099-097 piR-46662-098 piR-50308-098 piR-53431-098 piR-41399-084
GH12J001917 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 12.1 +98.4 98435 2.6 IKZF1 ZIC2 NR2C1 HDAC1 EP300 NRF1 CTBP1 ZSCAN29 NR2C2 GABPA CACNA2D4 ENSG00000256706 LRTM2 LOC112268103
GH12J001924 Enhancer 1.3 ENCODE CraniofacialAtlas dbSUPER 12.1 +104.5 104543 0.8 ZNF692 ZNF300 ZNF776 ZIC2 ZSCAN4 POLR2A PATZ1 IKZF2 ZNF501 TRIM22 ITFG2 TULP3 RAD52 DCP1B LRTM2 ERC1 CBX3P4 CACNA2D4 LINC00940 CACNA1C
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRTM2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LRTM2

Top Transcription factor binding sites by QIAGEN in the LRTM2 gene promoter:
  • AP-1
  • c-Fos
  • c-Jun
  • FosB
  • Fra-1
  • Ik-2
  • IRF-7A
  • JunB
  • JunD
  • RORalpha1

Genomic Locations for LRTM2 Gene

Genomic Locations for LRTM2 Gene
16,487 bases
Plus strand
16,486 bases
Plus strand

Genomic View for LRTM2 Gene

Genes around LRTM2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRTM2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRTM2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRTM2 Gene

Proteins for LRTM2 Gene

  • Protein details for LRTM2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Leucine-rich repeat and transmembrane domain-containing protein 2
    Protein Accession:
    Secondary Accessions:
    • A7E2U6

    Protein attributes for LRTM2 Gene

    370 amino acids
    Molecular mass:
    41158 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LRTM2 Gene

Post-translational modifications for LRTM2 Gene

  • Glycosylation at Asn90, Asn117, Asn125, and Asn257
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LRTM2 Gene

Domains & Families for LRTM2 Gene

Gene Families for LRTM2 Gene

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

Protein Domains for LRTM2 Gene

  • Cysteine-rich flanking region, N-terminal

Suggested Antigen Peptide Sequences for LRTM2 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ42697 fis, clone BRAMY3004224 (A7E2U6_HUMAN)
  • Leucine-rich repeat and transmembrane domain-containing protein 2 (LRTM2_HUMAN)
  • cDNA FLJ43413 fis, clone OCBBF2022574 (Q6ZUR1_HUMAN)
genes like me logo Genes that share domains with LRTM2: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LRTM2 Gene

Function for LRTM2 Gene

Phenotypes From GWAS Catalog for LRTM2 Gene

Gene Ontology (GO) - Molecular Function for LRTM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA --
GO:0008201 heparin binding IBA 21873635
GO:0048495 Roundabout binding IBA 21873635
genes like me logo Genes that share ontologies with LRTM2: view

Phenotypes for LRTM2 Gene

genes like me logo Genes that share phenotypes with LRTM2: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LRTM2

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LRTM2

Clone Products

  • Addgene plasmids for LRTM2

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRTM2 Gene

Localization for LRTM2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRTM2 Gene

Membrane. Single-pass type I membrane protein.

Subcellular locations from

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 LRTM2 gene
Compartment Confidence
plasma membrane 2
extracellular 1
mitochondrion 1
peroxisome 0
nucleus 0
endoplasmic reticulum 0
cytosol 0

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for LRTM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LRTM2: view

Pathways & Interactions for LRTM2 Gene

PathCards logo

SuperPathways for LRTM2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRTM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007411 axon guidance IBA 21873635
GO:0050919 negative chemotaxis IBA 21873635
GO:0051965 positive regulation of synapse assembly IEA --
genes like me logo Genes that share ontologies with LRTM2: view

No data available for Pathways by source and SIGNOR curated interactions for LRTM2 Gene

Drugs & Compounds for LRTM2 Gene

No Compound Related Data Available

Transcripts for LRTM2 Gene

mRNA/cDNA for LRTM2 Gene

13 NCBI additional mRNA sequence :
12 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LRTM2

Clone Products

  • Addgene plasmids for LRTM2

Alternative Splicing Database (ASD) splice patterns (SP) for LRTM2 Gene

No ASD Table

Relevant External Links for LRTM2 Gene

GeneLoc Exon Structure for

Expression for LRTM2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRTM2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRTM2 Gene

This gene is overexpressed in Brain - Putamen (basal ganglia) (x10.9), Brain - Cortex (x7.6), Brain - Caudate (basal ganglia) (x7.3), Brain - Nucleus accumbens (basal ganglia) (x5.8), Brain - Frontal Cortex (BA9) (x5.7), and Brain - Anterior cingulate cortex (BA24) (x4.6).

Protein differential expression in normal tissues from HIPED for LRTM2 Gene

This gene is overexpressed in Plasma (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LRTM2 Gene

Protein tissue co-expression partners for LRTM2 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LRTM2

SOURCE GeneReport for Unigene cluster for LRTM2 Gene:


Evidence on tissue expression from TISSUES for LRTM2 Gene

  • Nervous system(4.9)
genes like me logo Genes that share expression patterns with LRTM2: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRTM2 Gene

Orthologs for LRTM2 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRTM2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LRTM2 30 31
  • 98.83 (n)
(Canis familiaris)
Mammalia LRTM2 30 31
  • 90.9 (n)
(Rattus norvegicus)
Mammalia Lrtm2 30
  • 86.54 (n)
(Mus musculus)
Mammalia Lrtm2 30 17 31
  • 86.13 (n)
(Bos Taurus)
Mammalia LRTM2 30 31
  • 83.92 (n)
(Ornithorhynchus anatinus)
Mammalia LRTM2 31
  • 77 (a)
(Monodelphis domestica)
Mammalia LRTM2 31
  • 61 (a)
(Gallus gallus)
Aves LRTM2 30 31
  • 74.59 (n)
(Anolis carolinensis)
Reptilia LRTM2 31
  • 72 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia lrtm2 30
  • 69.65 (n)
(Danio rerio)
Actinopterygii lrtm2 30 31
  • 60.26 (n)
LRTM2 (2 of 2) 31
  • 33 (a)
Fruit Fly
(Drosophila melanogaster)
Insecta kek4 31
  • 13 (a)
kek6 31
  • 10 (a)
kek2 31
  • 9 (a)
kek3 31
  • 9 (a)
kek5 31
  • 9 (a)
kek1 31
  • 9 (a)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 22 (a)
CSA.1672 31
  • 20 (a)
-- 31
  • 15 (a)
Species where no ortholog for LRTM2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (Ciona intestinalis)
  • 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 LRTM2 Gene

Gene Tree for LRTM2 (if available)
Gene Tree for LRTM2 (if available)
Evolutionary constrained regions (ECRs) for LRTM2: view image

Paralogs for LRTM2 Gene

(5) SIMAP similar genes for LRTM2 Gene using alignment to 3 proteins:

  • F5H2B4_HUMAN
genes like me logo Genes that share paralogs with LRTM2: view

Variants for LRTM2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LRTM2 Gene

SNP ID Clinical significance and condition Chr 12 pos Variation AA Info Type
rs41276696 - p.Asp161Asn

Additional dbSNP identifiers (rs#s) for LRTM2 Gene

Structural Variations from Database of Genomic Variants (DGV) for LRTM2 Gene

Variant ID Type Subtype PubMed ID
dgv1338n100 CNV loss 25217958
dgv175n27 CNV loss 19166990
dgv2273n54 CNV loss 21841781
nsv470259 CNV loss 18288195
nsv518013 CNV loss 19592680
nsv523186 CNV loss 19592680
nsv524974 CNV loss 19592680
nsv556996 CNV gain 21841781
nsv832305 CNV gain 17160897
nsv832306 CNV loss 17160897

Variation tolerance for LRTM2 Gene

Residual Variation Intolerance Score: 32% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.15; 51.63% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRTM2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRTM2 Gene

Disorders for LRTM2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LRTM2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
preretinal fibrosis
  • cellophane maculopathy
- elite association - COSMIC cancer census association via MalaCards
Search LRTM2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LRTM2

genes like me logo Genes that share disorders with LRTM2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LRTM2 Gene

Publications for LRTM2 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  2. A genome-wide association study of behavioral disinhibition. (PMID: 23942779) McGue M … Iacono WG (Behavior genetics 2013) 3
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3
  5. 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) 4

Products for LRTM2 Gene

Sources for LRTM2 Gene