This gene encodes a member of the IgLON (LAMP, OBCAM, Ntm) family of immunoglobulin (Ig) domain-containing glycosylphosphatidylinositol (GPI)-anchored cell adhesion molecules. The encoded protein may promote neurite outgrowth and adhesion via a homophilic mechanism. This gene is closely linked to a related family member, opioid binding protein/cell adhesion molecule-like (OPCML... See more...

Aliases for NTM Gene

Aliases for NTM Gene

  • Neurotrimin 2 3 4 5
  • IgLON Family Member 2 2 3 4
  • IGLON2 3 4
  • HNT 3 4
  • CEPU-1 3
  • NTRI 3
  • NT 4

External Ids for NTM Gene

Previous GeneCards Identifiers for NTM Gene

  • GC11P130746
  • GC11P131240
  • GC11P127736

Summaries for NTM Gene

Entrez Gene Summary for NTM Gene

  • This gene encodes a member of the IgLON (LAMP, OBCAM, Ntm) family of immunoglobulin (Ig) domain-containing glycosylphosphatidylinositol (GPI)-anchored cell adhesion molecules. The encoded protein may promote neurite outgrowth and adhesion via a homophilic mechanism. This gene is closely linked to a related family member, opioid binding protein/cell adhesion molecule-like (OPCML), on chromosome 11. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2009]

GeneCards Summary for NTM Gene

NTM (Neurotrimin) is a Protein Coding gene. Diseases associated with NTM include Childhood Pilocytic Astrocytoma and Juvenile Pilocytic Astrocytoma. Among its related pathways are Metabolism of proteins and Post-translational modification- synthesis of GPI-anchored proteins. An important paralog of this gene is OPCML.

UniProtKB/Swiss-Prot Summary for NTM Gene

Gene Wiki entry for NTM Gene

Additional gene information for NTM Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NTM Gene

Genomics for NTM Gene

GeneHancer (GH) Regulatory Elements for NTM Gene

Promoters and enhancers for NTM 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
GH11J131909 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 750 +540.6 540560 3.4 CTCF ZEB2 PATZ1 SP2 HIC1 SIN3A NTM ENSG00000238117 HSALNG0088298
GH11J131252 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 750.1 -116.4 -116362 3.2 POU5F1 SP1 POLR2A NANOG ENSG00000231698 NTM piR-32804-009
GH11J131370 Promoter/Enhancer 0.9 EPDnew Ensembl CraniofacialAtlas 750.6 +0.7 692 1.3 PKNOX1 NTM RF00619-006 RNU6ATAC12P
GH11J132050 Enhancer 1.1 FANTOM5 Ensembl ENCODE dbSUPER 11.6 +692.7 692655 25.2 CREB1 POLR2A ATF1 ZNF629 TARDBP NFE2 FOS JUN JUND ZBTB21 NTM HSALNG0088300 NTM-IT
GH11J132022 Enhancer 1.1 FANTOM5 Ensembl ENCODE dbSUPER 6.8 +654.4 654405 4.5 MCM2 IKZF1 POLR2A PKNOX1 EED FOS NR2F1 JUNB BATF IRF4 NTM HSALNG0088300 ENSG00000224700
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NTM on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NTM gene promoter:
  • FOXI1
  • HFH-3
  • HOXA5
  • NF-1
  • NF-E2
  • NF-E2 p45
  • Nkx2-5
  • POU3F2
  • SEF-1 (1)

Genomic Locations for NTM Gene

Genomic Locations for NTM Gene
966,462 bases
Plus strand
966,346 bases
Plus strand

Genomic View for NTM Gene

Genes around NTM on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for NTM Gene

Proteins for NTM Gene

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

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • A0MTT2
    • Q6UXJ3
    • Q86VJ9

    Protein attributes for NTM Gene

    344 amino acids
    Molecular mass:
    37971 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for NTM Gene

    Alternative splice isoforms for NTM Gene


neXtProt entry for NTM Gene

Post-translational modifications for NTM Gene

  • Glycosylation at Asn44, Asn70, Asn152, Asn284, Asn292, Asn305, and Asn321
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for NTM Gene

Domains & Families for NTM Gene

Gene Families for NTM Gene

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

Suggested Antigen Peptide Sequences for NTM Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ57258, highly similar to Neurotrimin (B7Z1I4_HUMAN)
  • cDNA FLJ57265, highly similar to Neurotrimin (B7Z1Z5_HUMAN)
  • IgLON family member 2 (NTRI_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the immunoglobulin superfamily. IgLON family.
  • Belongs to the immunoglobulin superfamily. IgLON family.
genes like me logo Genes that share domains with NTM: view

Function for NTM Gene

Molecular function for NTM Gene

UniProtKB/Swiss-Prot Function:
Neural cell adhesion molecule.

Phenotypes From GWAS Catalog for NTM Gene

Gene Ontology (GO) - Molecular Function for NTM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21982860
genes like me logo Genes that share ontologies with NTM: view
genes like me logo Genes that share phenotypes with NTM: view

Animal Models for NTM Gene

MGI Knock Outs for NTM:
  • Ntm Ntm<tm1Lex>

Animal Model Products

  • Taconic Biosciences Mouse Models for NTM

CRISPR Products

Clone Products

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

Localization for NTM Gene

Subcellular locations from UniProtKB/Swiss-Prot for NTM Gene

Cell membrane; Lipid-anchor, GPI-anchor.

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 NTM gene
Compartment Confidence
plasma membrane 5
extracellular 4
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for NTM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0031225 anchored component of membrane IEA --
genes like me logo Genes that share ontologies with NTM: view

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

Pathways & Interactions for NTM Gene

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

Gene Ontology (GO) - Biological Process for NTM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion NAS,IEA --
GO:0008038 neuron recognition TAS 7891157
genes like me logo Genes that share ontologies with NTM: view

No data available for SIGNOR curated interactions for NTM Gene

Drugs & Compounds for NTM Gene

(13) Drugs for NTM Gene - From: ClinicalTrials

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Azithromycin Approved Pharma 420
Clarithromycin Approved Pharma 357
Ethambutol Approved Pharma 110
Rifampicin Approved Pharma Agonist, Inhibition, Inhibitor Pregnane X receptor agonist; antibiotic 437
Anti-Bacterial Agents Pharma 13460
genes like me logo Genes that share compounds with NTM: view

Transcripts for NTM Gene

CRISPR Products

Clone Products

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

No ASD Table

Relevant External Links for NTM Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NTM Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Brain - Cerebellar Hemisphere (x5.9), Brain - Cerebellum (x5.7), Brain - Cortex (x4.1), and Brain - Frontal Cortex (BA9) (x4.1).

Protein differential expression in normal tissues from HIPED for NTM Gene

This gene is overexpressed in Cerebrospinal fluid (27.6), Fetal Brain (16.5), Frontal cortex (9.6), and Retina (6.4).

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

Protein tissue co-expression partners for NTM Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NTM Gene:


SOURCE GeneReport for Unigene cluster for NTM Gene:


Evidence on tissue expression from TISSUES for NTM Gene

  • Skin(4)
genes like me logo Genes that share expression patterns with NTM: view

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

Orthologs for NTM Gene

This gene was present in the common ancestor of animals.

Orthologs for NTM Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia NTM 33 32
  • 99.11 (n)
(Canis familiaris)
Mammalia NTM 33 32
  • 92.77 (n)
(Bos Taurus)
Mammalia NTM 33 32
  • 91.08 (n)
(Rattus norvegicus)
Mammalia Ntm 32
  • 90.99 (n)
(Ornithorhynchus anatinus)
Mammalia NTM 33
  • 89 (a)
(Mus musculus)
Mammalia Ntm 17 33 32
  • 87.69 (n)
(Monodelphis domestica)
Mammalia NTM 33
  • 79 (a)
(Gallus gallus)
Aves NTM 33 32
  • 78.93 (n)
(Anolis carolinensis)
Reptilia NTM 33
  • 83 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia ntm 32
  • 71.37 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.26284 32
(Danio rerio)
Actinopterygii opcml 33
  • 60 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG31708 33 32
  • 47.86 (n)
CG11320 33
  • 24 (a)
CG40378 33
  • 24 (a)
CG14521 33
  • 23 (a)
Ama 33
  • 23 (a)
CG42368 33
  • 22 (a)
CG14010 33
  • 22 (a)
Lac 33
  • 21 (a)
CG34391 33
  • 20 (a)
CG42343 33
  • 18 (a)
CG31646 33
  • 17 (a)
CG7166 33
  • 17 (a)
CG32791 33
  • 17 (a)
CG31814 33
  • 16 (a)
CG34353 33
  • 16 (a)
klg 33
  • 16 (a)
wrapper 33
  • 15 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009965 32
  • 44.66 (n)
(Caenorhabditis elegans)
Secernentea rig-5 33
  • 19 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 33
  • 29 (a)
Species where no ortholog for NTM was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)

Evolution for NTM Gene

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

Paralogs for NTM Gene

Paralogs for NTM Gene

(6) SIMAP similar genes for NTM Gene using alignment to 7 proteins:

  • B7Z1I4_HUMAN
  • B7Z1Z5_HUMAN
  • C9J0V2_HUMAN
  • C9JK95_HUMAN
  • H7BZ62_HUMAN
genes like me logo Genes that share paralogs with NTM: view

Variants for NTM Gene

Sequence variations from dbSNP and Humsavar for NTM Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs139579932 likely-benign, Connective tissue disorder 132,335,082(+) C/T 3_prime_UTR_variant, coding_sequence_variant, downstream_transcript_variant, genic_downstream_transcript_variant, missense_variant, non_coding_transcript_variant
rs201653643 likely-benign, Connective tissue disorder 132,330,155(+) G/A coding_sequence_variant, genic_downstream_transcript_variant, intron_variant, missense_variant, non_coding_transcript_variant
rs375999981 likely-benign, Connective tissue disorder 132,307,685(+) G/A intron_variant
rs1000000568 -- 131,492,760(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000003942 -- 131,632,741(+) C/A genic_upstream_transcript_variant, intron_variant

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

Variant ID Type Subtype PubMed ID
dgv1297n100 CNV gain 25217958
dgv1298n100 CNV gain 25217958
dgv1299n100 CNV gain 25217958
dgv2200n54 CNV gain 21841781
dgv2201n54 CNV gain 21841781
dgv2202n54 CNV gain 21841781
dgv236e214 CNV gain 21293372
dgv252n67 CNV gain 20364138
dgv424e212 CNV loss 25503493
dgv738n106 CNV deletion 24896259
dgv739n106 CNV deletion 24896259
esv1006260 CNV insertion 20482838
esv1008024 CNV deletion 20482838
esv1144589 CNV insertion 17803354
esv1186595 CNV deletion 17803354
esv1243815 CNV insertion 17803354
esv1453063 CNV deletion 17803354
esv1515834 CNV deletion 17803354
esv1589319 CNV insertion 17803354
esv1673449 CNV insertion 17803354
esv1929334 CNV deletion 18987734
esv2141370 CNV deletion 18987734
esv21641 CNV loss 19812545
esv24689 CNV gain 19812545
esv2517835 CNV insertion 19546169
esv25603 CNV loss 19812545
esv2632966 CNV deletion 19546169
esv26341 CNV loss 19812545
esv2652259 CNV deletion 19546169
esv2659747 CNV deletion 23128226
esv2666803 CNV deletion 23128226
esv2668524 CNV deletion 23128226
esv2672347 CNV deletion 23128226
esv2674917 CNV deletion 23128226
esv2675610 CNV deletion 23128226
esv2677132 CNV deletion 23128226
esv2745268 CNV deletion 23290073
esv2745269 CNV deletion 23290073
esv2745270 CNV deletion 23290073
esv2745271 CNV deletion 23290073
esv2745272 CNV deletion 23290073
esv2745273 CNV deletion 23290073
esv2745274 CNV deletion 23290073
esv2745276 CNV deletion 23290073
esv2745277 CNV deletion 23290073
esv2745278 CNV deletion 23290073
esv2745279 CNV deletion 23290073
esv2745280 CNV deletion 23290073
esv2745281 CNV deletion 23290073
esv2745282 CNV deletion 23290073
esv2745283 CNV deletion 23290073
esv2745284 CNV deletion 23290073
esv275372 CNV gain+loss 21479260
esv2759873 CNV gain 17122850
esv2760178 CNV loss 21179565
esv27663 CNV gain 19812545
esv3254718 CNV deletion 24192839
esv3304824 CNV mobile element insertion 20981092
esv3332815 CNV duplication 20981092
esv3337538 CNV insertion 20981092
esv3356717 CNV insertion 20981092
esv3369393 CNV duplication 20981092
esv3389636 CNV duplication 20981092
esv3406245 CNV insertion 20981092
esv3407733 CNV insertion 20981092
esv3408741 CNV duplication 20981092
esv3548533 CNV deletion 23714750
esv3548537 CNV deletion 23714750
esv3548540 CNV deletion 23714750
esv3579974 CNV loss 25503493
esv3579979 CNV loss 25503493
esv3628108 CNV loss 21293372
esv3628109 CNV loss 21293372
esv3628111 CNV loss 21293372
esv3628112 CNV loss 21293372
esv3628113 CNV loss 21293372
esv3628115 CNV loss 21293372
esv3628119 CNV loss 21293372
esv3628120 CNV loss 21293372
esv3628121 CNV gain 21293372
esv3628122 CNV loss 21293372
esv3892109 CNV loss 25118596
esv3892110 CNV gain 25118596
esv3892111 CNV loss 25118596
esv8607 CNV loss 19470904
esv9451 CNV gain 19470904
esv993815 CNV deletion 20482838
nsv1035733 CNV gain 25217958
nsv1036099 CNV loss 25217958
nsv1039087 CNV gain 25217958
nsv1044874 CNV gain 25217958
nsv1050988 CNV gain 25217958
nsv1053895 CNV gain 25217958
nsv1070996 CNV deletion 25765185
nsv1113448 CNV deletion 24896259
nsv1113449 CNV deletion 24896259
nsv1116685 CNV tandem duplication 24896259
nsv1116686 CNV tandem duplication 24896259
nsv1116687 CNV tandem duplication 24896259
nsv1122681 CNV deletion 24896259
nsv1122682 CNV deletion 24896259
nsv1122683 CNV deletion 24896259
nsv1127239 CNV deletion 24896259
nsv1129528 CNV tandem duplication 24896259
nsv1141205 CNV duplication 24896259
nsv1143554 CNV deletion 24896259
nsv1151074 CNV duplication 26484159
nsv39518 CNV insertion 16902084
nsv428266 CNV gain 18775914
nsv428267 CNV loss 18775914
nsv468898 CNV gain 19166990
nsv474443 CNV novel sequence insertion 20440878
nsv499166 CNV gain 21111241
nsv510281 OTHER sequence alteration 20534489
nsv512244 CNV loss 21212237
nsv513747 CNV insertion 21212237
nsv517550 CNV gain+loss 19592680
nsv519866 CNV loss 19592680
nsv522510 CNV loss 19592680
nsv526844 CNV gain 19592680
nsv553 CNV insertion 18451855
nsv554 CNV insertion 18451855
nsv556 CNV deletion 18451855
nsv556577 CNV gain+loss 21841781
nsv556579 CNV gain 21841781
nsv556581 CNV gain 21841781
nsv556587 CNV loss 21841781
nsv556588 CNV loss 21841781
nsv821528 CNV deletion 20802225
nsv826135 CNV loss 20364138
nsv832296 CNV gain 17160897
nsv952762 CNV deletion 24416366
nsv983214 CNV duplication 23825009

Variation tolerance for NTM Gene

Residual Variation Intolerance Score: 22.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.94; 36.01% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NTM Gene

Human Gene Mutation Database (HGMD)
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 NTM Gene

Disorders for NTM Gene

MalaCards: The human disease database

(2) MalaCards diseases for NTM Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
childhood pilocytic astrocytoma
  • pediatric pilocytic astrocytoma
juvenile pilocytic astrocytoma
- elite association - COSMIC cancer census association via MalaCards
Search NTM in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NTM

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with NTM: view

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

Publications for NTM Gene

  1. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 43 56
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 43 56
  3. A genome-wide meta-analysis identifies novel loci associated with schizophrenia and bipolar disorder. (PMID: 20889312) Wang KS … Aragam N (Schizophrenia research 2010) 3 43 56
  4. Variants in several genomic regions associated with asperger disorder. (PMID: 21182207) Salyakina D … Pericak-Vance MA (Autism research : official journal of the International Society for Autism Research 2010) 3 43 56
  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) 3 4 56

Products for NTM Gene

Sources for NTM Gene