NTNG1 netrin G1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: NTNG1provided by HGNC
Official Full Name: netrin G1provided by HGNC
Primary source: HGNC:HGNC:23319
See related: Ensembl:ENSG00000162631 MIM:608818; AllianceGenome:HGNC:23319
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: Lmnt1; NetG1; NetrinG1
Summary: This gene encodes a preproprotein that is processed into a secreted protein containing eukaroytic growth factor (EGF)-like domains. This protein acts to guide axon growth during neuronal development. Polymorphisms in this gene may be associated with schizophrenia. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Aug 2015]
Expression: Broad expression in brain (RPKM 1.0), kidney (RPKM 0.9) and 14 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 1p13.3

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (107140088..107484923)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (107177595..107522472)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (107682710..108027545)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Comprehensive analysis of the role of Netrin G1 (NTNG1) in hepatocellular carcinoma cells.
Title: Comprehensive analysis of the role of Netrin G1 (NTNG1) in hepatocellular carcinoma cells.
CircNTNG1 inhibits renal cell carcinoma progression via HOXA5-mediated epigenetic silencing of Slug.
Title: CircNTNG1 inhibits renal cell carcinoma progression via HOXA5-mediated epigenetic silencing of Slug.
A Genetic Study of Cerebral Atherosclerosis Reveals Novel Associations with NTNG1 and CNOT3.
Title: A Genetic Study of Cerebral Atherosclerosis Reveals Novel Associations with NTNG1 and CNOT3.
A 117-base pair SARS-CoV-2 orf1b sequence matched a sequence in the human genome with 94.6% identity. The sequence was in chromosome 1p within an intronic region of the netrin G1 (NTNG1) gene, implicated in schizophrenia.
Title: SARS-CoV-2 orf1b Gene Sequence in the NTNG1 Gene on Human Chromosome 1.
Significant genetic family-based associations were detected between NTNG1 polymorphisms and cocaine dependence. NTNG1 expression in BA10, BA46 and the cerebellum, however, were not significantly associated with any allele or haplotype of this gene.
Title: Netrin G1: its downregulation in the nucleus accumbens of cocaine-conditioned mice and genetic association in human cocaine dependence.
examined the hypothesis that NTNG1 allelic variation contributes to the risk for schizophrenia
Title: Replication of NTNG1 association in schizophrenia.
Interaction between the tripartite NGL-1, netrin-G1 and LAR adhesion complex promotes development of excitatory synapses.
Title: Trans-induced cis interaction in the tripartite NGL-1, netrin-G1 and LAR adhesion complex promotes development of excitatory synapses.
Our finding nominates the minor G allele of the NTNG1 rs628117 single nucleotide polymorphism as a risk factor for ischemic stroke at least in Armenian population.
Title: The netrin G1 gene rs628117 polymorphism is associated with ischemic stroke.
Genotype and allele frequencies of single nucleotide polymorphisms on NTNG1 are significantly associated with schizophrenia.
Title: Positive association between NTNG1 and schizophrenia in Chinese Han population.
Observational study and genome-wide association study of gene-disease association. (HuGE Navigator)
Title: A genome-wide association study on common SNPs and rare CNVs in anorexia nervosa.

Submit: New GeneRIF Correction See all GeneRIFs (22)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide association study on common SNPs and rare CNVs in anorexia nervosa. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NTNG1__6081 (e-PCR)
- UniSTS:463649

SHGC-75249 (e-PCR)
- UniSTS:55597

SHGC-75244 (e-PCR)
- UniSTS:28219

RH68911 (e-PCR)
- UniSTS:83286

AL033680 (e-PCR)
- UniSTS:93538

RH92811 (e-PCR)
- UniSTS:91022

SHGC-52775 (e-PCR)
- UniSTS:38287

SHGC-132826 (e-PCR)
- UniSTS:170911

HSC15A052 (e-PCR)
- UniSTS:6569

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables cell adhesion molecule binding	IPI Inferred from Physical Interaction more info	PubMed
enables cell-cell adhesion mediator activity	IGI Inferred from Genetic Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in axonogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in modulation of chemical synaptic transmission	IEA Inferred from Electronic Annotation more info
involved_in regulation of neuron migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of neuron projection arborization	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of neuron projection development	ISS Inferred from Sequence or Structural Similarity more info
involved_in synaptic membrane adhesion	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in Schaffer collateral - CA1 synapse	IEA Inferred from Electronic Annotation more info
located_in extracellular region	TAS Traceable Author Statement more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IDA Inferred from Direct Assay more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	TAS Traceable Author Statement more info
located_in presynaptic active zone membrane	IEA Inferred from Electronic Annotation more info
located_in side of membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: netrin-G1

Names: axon guidance molecule; laminet 1

NCBI Reference Sequences (RefSeq)

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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.

Genomic

NG_042821.1 RefSeqGene

Range

6122..350006

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001113226.3 → NP_001106697.1 netrin-G1 isoform G1a preproprotein

See identical proteins and their annotated locations for NP_001106697.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longest isoform (G1a).

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS44180.1

UniProtKB/Swiss-Prot

Q5VU86, Q5VU87, Q5VU89, Q5VU90, Q5VU91, Q7Z2Y3, Q8N633, Q9Y2I2

Related

ENSP00000359085.1, ENST00000370068.6

Conserved Domains (3) summary

smart00180
Location:420 → 467

EGF_Lam; Laminin-type epidermal growth factor-like domai

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001113228.3 → NP_001106699.1 netrin-G1 isoform G1d precursor

See identical proteins and their annotated locations for NP_001106699.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks two exons and contains two alternate exons in the 3' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (G1d) is shorter than isoform a.

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS44179.1

UniProtKB/TrEMBL

X5DNW2

Conserved Domains (3) summary

cd00054
Location:415 → 439

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001312688.2 → NP_001299617.1 netrin-G1 isoform G1n precursor

Status: REVIEWED

Description

Transcript Variant: This variant (4) lacks an exon and contains an alternate exon in the 3' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (G1n) is shorter than isoform a.

Source sequence(s)

AC114491, AK025924, AK296533, AL513187

UniProtKB/TrEMBL

B4DKF0, E7EQM9

Conserved Domains (4) summary

smart00180
Location:386 → 433

EGF_Lam; Laminin-type epidermal growth factor-like domai

cd00054
Location:440 → 464

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001330665.2 → NP_001317594.1 netrin-G1 isoform 5 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (5) contains an alternate in-frame exon and lacks two alternate in-frame exons compared to variant 1. The resulting isoform (5) has the same N- and C-termini but is shorter compared to isoform G1a.

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS81354.1

UniProtKB/Swiss-Prot

Q9Y2I2

Related

ENSP00000359084.1, ENST00000370067.5

Conserved Domains (3) summary

cd00054
Location:395 → 419

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001372166.1 → NP_001359095.1 netrin-G1 isoform 6 precursor

Status: REVIEWED

Source sequence(s)

AC114491, AL513187, AL590427

Conserved Domains (4) summary

smart00180
Location:364 → 411

EGF_Lam; Laminin-type epidermal growth factor-like domai

cd00054
Location:418 → 442

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001372167.1 → NP_001359096.1 netrin-G1 isoform G1a preproprotein

Status: REVIEWED

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS44180.1

UniProtKB/Swiss-Prot

Q5VU86, Q5VU87, Q5VU89, Q5VU90, Q5VU91, Q7Z2Y3, Q8N633, Q9Y2I2

Related

ENSP00000359090.2, ENST00000370073.6

Conserved Domains (3) summary

smart00180
Location:420 → 467

EGF_Lam; Laminin-type epidermal growth factor-like domai

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001372168.1 → NP_001359097.1 netrin-G1 isoform G1c precursor

Status: REVIEWED

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS30785.1

UniProtKB/TrEMBL

B4DMW3

Conserved Domains (3) summary

cd00054
Location:373 → 397

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001372169.1 → NP_001359098.1 netrin-G1 isoform G1d precursor

Status: REVIEWED

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS44179.1

UniProtKB/TrEMBL

X5DNW2

Related

ENSP00000359083.1, ENST00000370066.5

Conserved Domains (3) summary

cd00054
Location:415 → 439

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001372170.1 → NP_001359099.1 netrin-G1 isoform G1a preproprotein

Status: REVIEWED

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS44180.1

UniProtKB/Swiss-Prot

Q5VU86, Q5VU87, Q5VU89, Q5VU90, Q5VU91, Q7Z2Y3, Q8N633, Q9Y2I2

Conserved Domains (3) summary

smart00180
Location:420 → 467

EGF_Lam; Laminin-type epidermal growth factor-like domai

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_001372171.1 → NP_001359100.1 netrin-G1 isoform G1c precursor

Status: REVIEWED

Source sequence(s)

AC114491, AL513187, AL590427

Consensus CDS

CCDS30785.1

UniProtKB/TrEMBL

B4DMW3

Conserved Domains (3) summary

cd00054
Location:373 → 397

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
NM_014917.4 → NP_055732.2 netrin-G1 isoform G1c precursor

See identical proteins and their annotated locations for NP_055732.2

Status: REVIEWED

Description

Transcript Variant: This variant (3) contains a longer 5' UTR and lacks two exons in the 3' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (G1c) is shorter than isoform a.

Source sequence(s)

AC114491, AK025924, BC030220, DA195069

Consensus CDS

CCDS30785.1

UniProtKB/TrEMBL

B4DMW3

Related

ENSP00000359091.3, ENST00000370074.8

Conserved Domains (3) summary

cd00054
Location:373 → 397

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000001.11 Reference GRCh38.p14 Primary Assembly

Range

107140088..107484923

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017000683.3 → XP_016856172.1 netrin-G1 isoform X3

UniProtKB/TrEMBL

X5DNW2

Conserved Domains (3) summary

cd00054
Location:415 → 439

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
XM_047449449.1 → XP_047305405.1 netrin-G1 isoform X4
XM_047449447.1 → XP_047305403.1 netrin-G1 isoform X2
XM_017000686.3 → XP_016856175.1 netrin-G1 isoform X6

UniProtKB/Swiss-Prot

Q9Y2I2

Related

ENST00000294649.8

Conserved Domains (2) summary

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
XM_011541025.3 → XP_011539327.1 netrin-G1 isoform X5

Conserved Domains (2) summary

cd00055
Location:296 → 342

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00055
Location:71 → 295

Laminin_N; Laminin N-terminal (Domain VI)
XM_047449448.1 → XP_047305404.1 netrin-G1 isoform X2
XM_047449446.1 → XP_047305402.1 netrin-G1 isoform X1

UniProtKB/Swiss-Prot

Q5VU86, Q5VU87, Q5VU89, Q5VU90, Q5VU91, Q7Z2Y3, Q8N633, Q9Y2I2