Atlas of Genetics and Cytogenetics in Oncology and Haematology

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NTN1 (netrin 1)

Identity

Alias (NCBI)MRMV4
NTN1L
HGNC (Hugo) NTN1
HGNC Alias symbNTN1L
HGNC Alias nameNetrin-1
LocusID (NCBI) 9423
Atlas_Id 41588
Location 17p13.1  [Link to chromosome band 17p13]
Location_base_pair Starts at 9021510 and ends at 9244000 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
ITGA10 (1q21.1) / NTN1 (17p13.1)NTN1 (17p13.1) / ACLY (17q21.2)NTN1 (17p13.1) / HDLBP (2q37.3)
NTN1 (17p13.1) / STX8 (17p13.1)NTN1 ACLYNTN1 17p13.1 / STX8 17p13.1

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  t(2;17)(q37;p13) NTN1/HDLBP
NTN1/STX8 (17p13)

External links

Nomenclature
HGNC (Hugo)NTN1   8029
Cards
Entrez_Gene (NCBI)NTN1  9423  netrin 1
AliasesMRMV4; NTN1L
GeneCards (Weizmann)NTN1
Ensembl hg19 (Hinxton)ENSG00000065320 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000065320 [Gene_View]  ENSG00000065320 [Sequence]  chr17:9021510-9244000 [Contig_View]  NTN1 [Vega]
ICGC DataPortalENSG00000065320
TCGA cBioPortalNTN1
AceView (NCBI)NTN1
Genatlas (Paris)NTN1
WikiGenes9423
SOURCE (Princeton)NTN1
Genetics Home Reference (NIH)NTN1
Genomic and cartography
GoldenPath hg38 (UCSC)NTN1  -     chr17:9021510-9244000 +  17p13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)NTN1  -     17p13.1   [Description]    (hg19-Feb_2009)
GoldenPathNTN1 - 17p13.1 [CytoView hg19]  NTN1 - 17p13.1 [CytoView hg38]
ImmunoBaseENSG00000065320
genome Data Viewer NCBINTN1 [Mapview hg19]  
OMIM601614   618264   
Gene and transcription
Genbank (Entrez)BC092429 GU727649 U75586
RefSeq transcript (Entrez)NM_004822
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)NTN1
Alternative Splicing GalleryENSG00000065320
Gene ExpressionNTN1 [ NCBI-GEO ]   NTN1 [ EBI - ARRAY_EXPRESS ]   NTN1 [ SEEK ]   NTN1 [ MEM ]
Gene Expression Viewer (FireBrowse)NTN1 [ Firebrowse - Broad ]
GenevisibleExpression of NTN1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9423
GTEX Portal (Tissue expression)NTN1
Human Protein AtlasENSG00000065320-NTN1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95631   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95631  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95631
Splice isoforms : SwissVarO95631
PhosPhoSitePlusO95631
Domaine pattern : Prosite (Expaxy)EGF_1 (PS00022)    EGF_LAM_1 (PS01248)    EGF_LAM_2 (PS50027)    LAMININ_NTER (PS51117)    NTR (PS50189)   
Domains : Interpro (EBI)Galactose-bd-like_sf    Laminin_EGF    Laminin_N    Laminin_N_sf    Netrin_domain    Netrin_module_non-TIMP    TIMP-like_OB-fold   
Domain families : Pfam (Sanger)Laminin_EGF (PF00053)    Laminin_N (PF00055)    NTR (PF01759)   
Domain families : Pfam (NCBI)pfam00053    pfam00055    pfam01759   
Domain families : Smart (EMBL)C345C (SM00643)  EGF_Lam (SM00180)  LamNT (SM00136)  
Conserved Domain (NCBI)NTN1
DMDM Disease mutations9423
Blocks (Seattle)NTN1
PDB (RSDB)4URT    6FKQ   
PDB Europe4URT    6FKQ   
PDB (PDBSum)4URT    6FKQ   
PDB (IMB)4URT    6FKQ   
Structural Biology KnowledgeBase4URT    6FKQ   
SCOP (Structural Classification of Proteins)4URT    6FKQ   
CATH (Classification of proteins structures)4URT    6FKQ   
SuperfamilyO95631
Human Protein Atlas [tissue]ENSG00000065320-NTN1 [tissue]
Peptide AtlasO95631
HPRD03368
IPIIPI00006732   IPI00797412   
Protein Interaction databases
DIP (DOE-UCLA)O95631
IntAct (EBI)O95631
FunCoupENSG00000065320
BioGRIDNTN1
STRING (EMBL)NTN1
ZODIACNTN1
Ontologies - Pathways
QuickGOO95631
Ontology : AmiGOneuron migration  protein binding  extracellular region  extracellular region  basement membrane  cytoplasm  apoptotic process  substrate-dependent cell migration, cell extension  nuclear migration  Ras protein signal transduction  motor neuron axon guidance  positive regulation of cell proliferation  animal organ morphogenesis  tissue development  dendrite development  regulation of cell migration  negative regulation of axon extension  Cdc42 protein signal transduction  anterior/posterior axon guidance  inner ear morphogenesis  positive regulation of axon extension  regulation of synapse assembly  mammary gland duct morphogenesis  chemorepulsion of axon  cell-cell adhesion  negative regulation of netrin-activated signaling pathway  positive regulation of cell motility  
Ontology : EGO-EBIneuron migration  protein binding  extracellular region  extracellular region  basement membrane  cytoplasm  apoptotic process  substrate-dependent cell migration, cell extension  nuclear migration  Ras protein signal transduction  motor neuron axon guidance  positive regulation of cell proliferation  animal organ morphogenesis  tissue development  dendrite development  regulation of cell migration  negative regulation of axon extension  Cdc42 protein signal transduction  anterior/posterior axon guidance  inner ear morphogenesis  positive regulation of axon extension  regulation of synapse assembly  mammary gland duct morphogenesis  chemorepulsion of axon  cell-cell adhesion  negative regulation of netrin-activated signaling pathway  positive regulation of cell motility  
Pathways : KEGGAxon guidance   
NDEx NetworkNTN1
Atlas of Cancer Signalling NetworkNTN1
Wikipedia pathwaysNTN1
Orthology - Evolution
OrthoDB9423
GeneTree (enSembl)ENSG00000065320
Phylogenetic Trees/Animal Genes : TreeFamNTN1
HOGENOMO95631
Homologs : HomoloGeneNTN1
Homology/Alignments : Family Browser (UCSC)NTN1
Gene fusions - Rearrangements
Fusion : MitelmanNTN1/HDLBP [17p13.1/2q37.3]  
Fusion : MitelmanNTN1/STX8 [17p13.1/17p13.1]  
Fusion PortalNTN1 17p13.1 STX8 17p13.1 LUSC
Fusion : QuiverNTN1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerNTN1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)NTN1
dbVarNTN1
ClinVarNTN1
1000_GenomesNTN1 
Exome Variant ServerNTN1
GNOMAD BrowserENSG00000065320
Varsome BrowserNTN1
Genetic variants : HAPMAP9423
Genomic Variants (DGV)NTN1 [DGVbeta]
DECIPHERNTN1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisNTN1 
Mutations
ICGC Data PortalNTN1 
TCGA Data PortalNTN1 
Broad Tumor PortalNTN1
OASIS PortalNTN1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICNTN1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DNTN1
Mutations and Diseases : HGMDNTN1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch NTN1
DgiDB (Drug Gene Interaction Database)NTN1
DoCM (Curated mutations)NTN1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)NTN1 (select a term)
intoGenNTN1
Cancer3DNTN1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601614    618264   
Orphanet
DisGeNETNTN1
MedgenNTN1
Genetic Testing Registry NTN1
NextProtO95631 [Medical]
TSGene9423
GENETestsNTN1
Target ValidationNTN1
Huge Navigator NTN1 [HugePedia]
snp3D : Map Gene to Disease9423
BioCentury BCIQNTN1
ClinGenNTN1
Clinical trials, drugs, therapy
Protein Interactions : CTD9423
Pharm GKB GenePA31813
Clinical trialNTN1
Miscellaneous
canSAR (ICR)NTN1 (select the gene name)
HarmonizomeNTN1
DataMed IndexNTN1
Probes
Litterature
PubMed151 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineNTN1
EVEXNTN1
GoPubMedNTN1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Jul 16 15:27:51 CEST 2020
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