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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

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. An important paralog of this gene is ENSG00000173366.

Additional gene information for LRTM2 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRTM2 Gene

Genomics for LRTM2 Gene

GeneHancer (GH) Regulatory Elements for LRTM2 Gene

Promoters and enhancers for LRTM2 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
GH12J001820 Promoter/Enhancer 1.3 EPDnew Ensembl dbSUPER 600.7 +0.5 541 4.8 ZNF148 ZIC2 EZH2 POLR2A ZFHX2 MNT ZNF366 KLF17 NRF1 SIN3A LRTM2 GC12P001818 GC12P001819 GC12P001865 CACNA2D4
GH12J001924 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 12.1 +104.5 104543 0.8 ZNF121 ZNF687 ZSCAN21 ZBTB7A YY1 SP7 ZNF548 MZF1 ZNF680 IKZF1 ITFG2 TULP3 RAD52 DCP1B LRTM2 ERC1 CBX3P4 CACNA2D4 GC12M001928
GH12J001920 Promoter/Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 12.1 +101.5 101534 2 CTCF ZFHX2 EZH2 ZBTB33 POLR2A MAX CACNA2D4 LRTM2 ENSG00000256706 GC12M001928
GH12J001915 Promoter/Enhancer 1.4 Ensembl ENCODE dbSUPER 11.8 +95.5 95483 1.1 ZNF639 ZIC2 ZSCAN4 ZNF740 MNT ZBTB11 GABPA TCF12 VEZF1 POLR2A LRTM2 ENSG00000256706 CACNA2D4 GC12P001912 GC12P001911 GC12P001910
GH12J001919 Promoter/Enhancer 0.9 Ensembl dbSUPER 12.1 +99.1 99134 0.4 NR2C1 ZFHX2 EGR2 CACNA2D4 ENSG00000256706 LRTM2
- 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 UCSC Golden Path with GeneCards custom track

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
chr12:1,820,267-1,836,753
(GRCh38/hg38)
Size:
16,487 bases
Orientation:
Plus strand
chr12:1,929,433-1,945,918
(GRCh37/hg19)
Size:
16,486 bases
Orientation:
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:
    Q8N967-LRTM2_HUMAN
    Recommended name:
    Leucine-rich repeat and transmembrane domain-containing protein 2
    Protein Accession:
    Q8N967
    Secondary Accessions:
    • A7E2U6

    Protein attributes for LRTM2 Gene

    Size:
    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 posLast=9090, isoforms=257, posLast=117117, and isoforms=125
  • 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 membrane proteins
  • Predicted secreted proteins

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)

Graphical View of Domain Structure for InterPro Entry

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

No data available for 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:0008201 heparin binding IBA 21873635
GO:0048495 Roundabout binding IBA 21873635
genes like me logo Genes that share ontologies with LRTM2: view
genes like me logo Genes that share phenotypes with LRTM2: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LRTM2

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for LRTM2 - Now 50% OFF >
  • * LRTM2 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * LRTM2 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All
  • 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

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

Gene Ontology (GO) - Cellular Components for LRTM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LRTM2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LRTM2 Gene

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

(3) REFSEQ mRNAs :
(13) Additional mRNA sequences :
(12) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Unigene Clusters for LRTM2 Gene

Leucine-rich repeats and transmembrane domains 2:
Representative Sequences:

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for LRTM2 - Now 50% OFF >
  • * LRTM2 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * LRTM2 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All
  • 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
LRTM2
ECgene alternative splicing isoforms for
LRTM2

Expression for LRTM2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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

NURSA nuclear receptor signaling pathways regulating expression of LRTM2 Gene:

LRTM2

SOURCE GeneReport for Unigene cluster for LRTM2 Gene:

Hs.585579

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
chimpanzee
(Pan troglodytes)
Mammalia LRTM2 35 34
  • 98.83 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LRTM2 35 34
  • 90.9 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrtm2 34
  • 86.54 (n)
mouse
(Mus musculus)
Mammalia Lrtm2 17 35 34
  • 86.13 (n)
cow
(Bos Taurus)
Mammalia LRTM2 35 34
  • 83.92 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LRTM2 35
  • 77 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LRTM2 35
  • 61 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRTM2 35 34
  • 74.59 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRTM2 35
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrtm2 34
  • 69.65 (n)
zebrafish
(Danio rerio)
Actinopterygii lrtm2 35 34
  • 60.26 (n)
OneToMany
LRTM2 (2 of 2) 35
  • 33 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta kek4 35
  • 13 (a)
ManyToMany
kek6 35
  • 10 (a)
ManyToMany
kek2 35
  • 9 (a)
ManyToMany
kek3 35
  • 9 (a)
ManyToMany
kek5 35
  • 9 (a)
ManyToMany
kek1 35
  • 9 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 22 (a)
ManyToMany
CSA.1672 35
  • 20 (a)
ManyToMany
-- 35
  • 15 (a)
ManyToMany
Species where no ortholog for LRTM2 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 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

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

Paralogs for LRTM2 Gene

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

  • LRTM2_HUMAN
  • F5GZY9_HUMAN
  • F5H2B4_HUMAN
genes like me logo Genes that share paralogs with LRTM2: view

Variants for LRTM2 Gene

Sequence variations from dbSNP and Humsavar for LRTM2 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000198033 -- 1,820,719(+) C/T 5_prime_UTR_variant, genic_upstream_transcript_variant
rs1000234980 -- 1,828,777(+) C/T intron_variant
rs1000250575 -- 1,820,500(+) G/A/T 5_prime_UTR_variant, genic_upstream_transcript_variant
rs1000403761 -- 1,833,047(+) T/G intron_variant
rs1000405188 -- 1,825,436(+) G/A/T genic_upstream_transcript_variant, intron_variant

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
LRTM2

SNP Genotyping and Copy Number Assay Products

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

Disorders for LRTM2 Gene

Additional Disease Information for LRTM2

No disorders were found for LRTM2 Gene.

No data available for MalaCards , 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 58
  2. A genome-wide association study of behavioral disinhibition. (PMID: 23942779) McGue M … Iacono WG (Behavior genetics 2013) 3 58
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3 58
  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 58
  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 58

Products for LRTM2 Gene

Sources for LRTM2 Gene

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