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NTM neurotrimin [ Homo sapiens (human) ]

Gene ID: 50863, updated on 10-Dec-2019

Summary

Official Symbol
NTMprovided by HGNC
Official Full Name
neurotriminprovided by HGNC
Primary source
HGNC:HGNC:17941
See related
Ensembl:ENSG00000182667 MIM:607938
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HNT; NTRI; CEPU-1; IGLON2
Summary
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]
Expression
Biased expression in brain (RPKM 12.0), lung (RPKM 3.5) and 5 other tissues See more
Orthologs

Genomic context

See NTM in Genome Data Viewer
Location:
11q25
Exon count:
17
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (131370308..132336822)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (131240371..132206716)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369578 Neighboring gene uncharacterized LOC107984412 Neighboring gene RNA, U6atac small nuclear 12, pseudogene Neighboring gene uncharacterized LOC101929653 Neighboring gene GPN-loop GTPase 1 pseudogene Neighboring gene NTM antisense RNA 1 Neighboring gene uncharacterized LOC107984413 Neighboring gene VISTA enhancer hs335 Neighboring gene NTM intronic transcript Neighboring gene opioid binding protein/cell adhesion molecule like Neighboring gene uncharacterized LOC105369580 Neighboring gene Sharpr-MPRA regulatory region 13397

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide meta-analysis identifies novel loci associated with schizophrenia and bipolar disorder.
NHGRI GWA Catalog
Association of genome-wide variation with highly sensitive cardiac troponin-T levels in European Americans and Blacks: a meta-analysis from atherosclerosis risk in communities and cardiovascular health studies.
NHGRI GWA Catalog
Genome-wide association analysis of blood biomarkers in chronic obstructive pulmonary disease.
NHGRI GWA Catalog
Genome-wide association studies identify several new loci associated with pigmentation traits and skin cancer risk in European Americans.
NHGRI GWA Catalog
Genome-wide association study identifies candidate genes for male fertility traits in humans.
NHGRI GWA Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
NHGRI GWA Catalog
Variants in several genomic regions associated with asperger disorder.
NHGRI GWA Catalog

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC60329

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
neuron recognition TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
anchored component of membrane IEA
Inferred from Electronic Annotation
more info
 
extracellular region TAS
Traceable Author Statement
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
neurotrimin
Names
IgLON family member 2

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001048209.2NP_001041674.1  neurotrimin isoform 2 precursor

    See identical proteins and their annotated locations for NP_001041674.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and in the coding region compared to variant 3, resulting in a protein that maintains the reading frame but is shorter and has a distinct N-terminus, compared to isoform 3.
    Source sequence(s)
    AA854425, AP004248, AY358331, BE504685
    Consensus CDS
    CCDS41733.1
    UniProtKB/Swiss-Prot
    Q9P121
    Related
    ENSP00000363923.3, ENST00000374791.7
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  2. NM_001144058.1NP_001137530.1  neurotrimin isoform 3 precursor

    See identical proteins and their annotated locations for NP_001137530.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) encodes isoform 3.
    Source sequence(s)
    AP000844, AP004248, AP005155
    Consensus CDS
    CCDS44777.1
    UniProtKB/Swiss-Prot
    Q9P121
    Related
    ENSP00000396722.2, ENST00000425719.6
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  3. NM_001144059.1NP_001137531.1  neurotrimin isoform 4 precursor

    See identical proteins and their annotated locations for NP_001137531.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 3' coding region and 3' UTR compared to variant 3. The resulting protein (isoform 4) has a distinct C-terminus, compared to isoform 3.
    Source sequence(s)
    AP000844, AP004248, AP005155
    Consensus CDS
    CCDS44778.1
    UniProtKB/Swiss-Prot
    Q9P121
    Related
    ENSP00000363916.1, ENST00000374784.5
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  4. NM_001352001.2NP_001338930.1  neurotrimin isoform 5 precursor

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP003166, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  5. NM_001352002.1NP_001338931.1  neurotrimin isoform 6 precursor

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  6. NM_001352003.2NP_001338932.1  neurotrimin isoform 7 precursor

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP003166, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  7. NM_001352004.1NP_001338933.1  neurotrimin isoform 8 precursor

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  8. NM_001352005.2NP_001338934.1  neurotrimin isoform 9 precursor

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP003166, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:233310
    IG; Immunoglobulin
    pfam13927
    Location:136205
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain
  9. NM_001352006.2NP_001338935.1  neurotrimin isoform 10

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP003039, AP003166, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:224301
    IG; Immunoglobulin
    pfam13927
    Location:127196
    Ig_3; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  10. NM_001352007.2NP_001338936.1  neurotrimin isoform 11

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP003039, AP003166, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:224301
    IG; Immunoglobulin
    pfam13927
    Location:127196
    Ig_3; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  11. NM_001352008.1NP_001338937.1  neurotrimin isoform 12

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:214291
    IG; Immunoglobulin
    pfam13927
    Location:117186
    Ig_3; Immunoglobulin domain
    cl11960
    Location:25113
    Ig; Immunoglobulin domain
  12. NM_001352009.2NP_001338938.1  neurotrimin isoform 13

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248, AP005155
    Conserved Domains (3) summary
    smart00409
    Location:192269
    IG; Immunoglobulin
    pfam13927
    Location:95164
    Ig_3; Immunoglobulin domain
    cl11960
    Location:391
    Ig; Immunoglobulin domain
  13. NM_016522.2NP_057606.1  neurotrimin isoform 1 precursor

    See identical proteins and their annotated locations for NP_057606.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) lacks an alternate exon in the 3' coding region, compared to variant 3. This variant encodes isoform 1, which is shorter than isoform 3.
    Source sequence(s)
    AA854425, AF126426, AP004248, BE222817, BE263639
    Consensus CDS
    CCDS8491.1
    UniProtKB/Swiss-Prot
    Q9P121
    Related
    ENSP00000363918.1, ENST00000374786.5
    Conserved Domains (2) summary
    pfam13927
    Location:222299
    Ig_3; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain

RNA

  1. NR_147848.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP003166, AP004248, AP005155
  2. NR_147849.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248
  3. NR_147850.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248, AP005155
    Related
    ENST00000539799.5
  4. NR_147851.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248, AP005155
  5. NR_147852.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248
  6. NR_147853.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248, AP005155
  7. NR_147854.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP000844, AP004248

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    131370308..132336822
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017017852.2XP_016873341.1  neurotrimin isoform X1

  2. XM_017017855.2XP_016873344.1  neurotrimin isoform X4

  3. XM_017017865.2XP_016873354.1  neurotrimin isoform X12

  4. XM_017017857.2XP_016873346.1  neurotrimin isoform X6

    Conserved Domains (4) summary
    smart00408
    Location:140196
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:224301
    IG_like; Immunoglobulin like
    pfam00047
    Location:217299
    ig; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  5. XM_017017858.2XP_016873347.1  neurotrimin isoform X7

    UniProtKB/TrEMBL
    B7Z1I4
    Conserved Domains (3) summary
    smart00409
    Location:224301
    IG; Immunoglobulin
    pfam13927
    Location:127196
    Ig_3; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  6. XM_017017862.2XP_016873351.1  neurotrimin isoform X9

    Conserved Domains (3) summary
    smart00409
    Location:224301
    IG; Immunoglobulin
    pfam13927
    Location:127196
    Ig_3; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  7. XM_017017856.1XP_016873345.1  neurotrimin isoform X6

    Conserved Domains (4) summary
    smart00408
    Location:140196
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:224301
    IG_like; Immunoglobulin like
    pfam00047
    Location:217299
    ig; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  8. XM_017017859.1XP_016873348.1  neurotrimin isoform X7

    UniProtKB/TrEMBL
    B7Z1I4
    Conserved Domains (3) summary
    smart00409
    Location:224301
    IG; Immunoglobulin
    pfam13927
    Location:127196
    Ig_3; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  9. XM_024448566.1XP_024304334.1  neurotrimin isoform X2

    Conserved Domains (3) summary
    smart00409
    Location:224301
    IG; Immunoglobulin
    pfam13927
    Location:127196
    Ig_3; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  10. XM_024448568.1XP_024304336.1  neurotrimin isoform X9

    Conserved Domains (3) summary
    smart00409
    Location:224301
    IG; Immunoglobulin
    pfam13927
    Location:127196
    Ig_3; Immunoglobulin domain
    cl11960
    Location:35123
    Ig; Immunoglobulin domain
  11. XM_017017860.2XP_016873349.1  neurotrimin isoform X8

  12. XM_017017863.1XP_016873352.1  neurotrimin isoform X10

  13. XM_024448569.1XP_024304337.1  neurotrimin isoform X13

    Conserved Domains (3) summary
    smart00409
    Location:192269
    IG; Immunoglobulin
    pfam13927
    Location:95164
    Ig_3; Immunoglobulin domain
    cl11960
    Location:391
    Ig; Immunoglobulin domain
  14. XM_017017866.2XP_016873355.1  neurotrimin isoform X14

  15. XM_024448567.1XP_024304335.1  neurotrimin isoform X5

    Conserved Domains (3) summary
    smart00409
    Location:214291
    IG; Immunoglobulin
    pfam13927
    Location:117186
    Ig_3; Immunoglobulin domain
    cl11960
    Location:25113
    Ig; Immunoglobulin domain
  16. XM_017017854.1XP_016873343.1  neurotrimin isoform X3

  17. XM_011542861.2XP_011541163.1  neurotrimin isoform X11

    Conserved Domains (4) summary
    smart00408
    Location:149205
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:233310
    IG_like; Immunoglobulin like
    pfam00047
    Location:226308
    ig; Immunoglobulin domain
    cl11960
    Location:44132
    Ig; Immunoglobulin domain

RNA

  1. XR_001747894.2 RNA Sequence

  2. XR_001747893.1 RNA Sequence

  3. XR_001747896.1 RNA Sequence

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