NEO1 neogenin 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: NEO1provided by HGNC
Official Full Name: neogenin 1provided by HGNC
Primary source: HGNC:HGNC:7754
See related: Ensembl:ENSG00000067141 MIM:601907; AllianceGenome:HGNC:7754
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: NGN; IGDCC2; NTN1R2
Summary: This gene encodes a cell surface protein that is a member of the immunoglobulin superfamily. The encoded protein consists of four N-terminal immunoglobulin-like domains, six fibronectin type III domains, a transmembrane domain and a C-terminal internal domain that shares homology with the tumor suppressor candidate gene DCC. This protein may be involved in cell growth and differentiation and in cell-cell adhesion. Defects in this gene are associated with cell proliferation in certain cancers. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Feb 2010]
Expression: Broad expression in colon (RPKM 23.2), skin (RPKM 16.0) and 23 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 15q24.1

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	15	NC_000015.10 (73051692..73305206)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	15	NC_060939.1 (70868937..71122333)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	15	NC_000015.9 (73344243..73597546)

Chromosome 15 - NC_000015.10 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: Tissue-specific circular RNA induction during human fetal development
Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
BioProject: PRJNA270632
Publication: PMID 26076956
Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Hepatic Expression of NTN4 and Its Receptors in Patients with Hepatocellular Carcinoma.
Title: Hepatic Expression of NTN4 and Its Receptors in Patients with Hepatocellular Carcinoma.
Netrin-1 Stimulates Migration of Neogenin Expressing Aggressive Melanoma Cells.
Title: Netrin-1 Stimulates Migration of Neogenin Expressing Aggressive Melanoma Cells.
Neogenin is highly expressed in diffuse intrinsic pontine glioma and influences tumor invasion.
Title: Neogenin is highly expressed in diffuse intrinsic pontine glioma and influences tumor invasion.
Hippocampal astrocytic neogenin regulating glutamate uptake, a critical pathway for preventing epileptic response.
Title: Hippocampal astrocytic neogenin regulating glutamate uptake, a critical pathway for preventing epileptic response.
Loss of Neogenin1 in human colorectal carcinoma cells causes a partial EMT and wound-healing response.
Title: Loss of Neogenin1 in human colorectal carcinoma cells causes a partial EMT and wound-healing response.
Netrin-1 promotes naive pluripotency through Neo1 and Unc5b co-regulation of Wnt and MAPK signaling.
Title: Netrin-1 promotes naive pluripotency through Neo1 and Unc5b co-regulation of Wnt and MAPK signalling.
Together, these findings identify a crucial role for Neo1 in regulating tissue regeneration and resolution of inflammation, and determined Neo1 to be a predictor of morbidity and mortality in critically ill children affected by clinical inflammation.
Title: Inhibition of neogenin fosters resolution of inflammation and tissue regeneration.
Overexpression of Neo1 significantly reduced the GC cell sensitivity to cisplatin and increased the cell viability, motility and adhesion ability, and while silencing of Neo1 showed contrary results.
Title: Neogenin-1 Promotes Cell Proliferation, Motility, and Adhesion by Up-Regulation of Zinc Finger E-Box Binding Homeobox 1 Via Activating the Rac1/PI3K/AKT Pathway in Gastric Cancer Cells.
Endogenous NTN4/NEO1 maintain neuroblastoma growth via both pro-survival and pro-migratory molecular signaling.
Title: The Netrin-4/ Neogenin-1 axis promotes neuroblastoma cell survival and migration.
Environmental and endogenous proteases may contribute to cancer development by depleting DCC and neogenin.
Title: Selective depletion of tumour suppressors Deleted in Colorectal Cancer (DCC) and neogenin by environmental and endogenous serine proteases: linking diet and cancer.

Submit: New GeneRIF Correction See all GeneRIFs (38)

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of NEO1	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Neo1 (e-PCR), detects polymorphism
- UniSTS:471096

RH93091 (e-PCR)
- UniSTS:87116

NEO1_8502 (e-PCR)
- UniSTS:467799

WI-15859 (e-PCR)
- UniSTS:18787

D15S905 (e-PCR)
- UniSTS:76138

Neo1 (e-PCR), detects polymorphism
- UniSTS:508012

D15S622E (e-PCR)
- UniSTS:30613

G31056 (e-PCR)
- UniSTS:62399

G17863 (e-PCR)
- UniSTS:61941

L18126 (e-PCR)
- UniSTS:31482

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables BMP receptor binding	IEA Inferred from Electronic Annotation more info
enables cadherin binding	IEA Inferred from Electronic Annotation more info
enables co-receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables signaling receptor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell adhesion	NAS Non-traceable Author Statement more info	PubMed
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in intracellular iron ion homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organismal-level iron ion homeostasis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in myoblast fusion	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of axon regeneration	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of protein secretion	IEA Inferred from Electronic Annotation more info
involved_in neuron migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of BMP signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in protein secretion	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in trans-synaptic signaling, modulating synaptic transmission	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IDA Inferred from Direct Assay more info
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
located_in intracellular vesicle	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info
located_in plasma membrane	TAS Traceable Author Statement more info
part_of plasma membrane protein complex	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic density membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: neogenin

Names: immunoglobulin superfamily DCC subclass member 2; neogenin homolog 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_016965.1 RefSeqGene

Range

4980..257722

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001172623.2 → NP_001166094.1 neogenin isoform 2 precursor

See identical proteins and their annotated locations for NP_001166094.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.

Source sequence(s)

AC068397, AC104420, AC129980

Consensus CDS

CCDS53957.1

Related

ENSP00000453317.1, ENST00000560262.5

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:739 → 818

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:539 → 628

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1158 → 1408

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain
NM_001172624.2 → NP_001166095.1 neogenin isoform 3 precursor

See identical proteins and their annotated locations for NP_001166095.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.

Source sequence(s)

AC068397, AC104420, AC129980

Consensus CDS

CCDS58378.1

Related

ENSP00000453200.1, ENST00000558964.5

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:739 → 818

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:539 → 628

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1147 → 1450

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain
NM_001419531.1 → NP_001406460.1 neogenin isoform 4 precursor

Status: REVIEWED

Source sequence(s)

AC068397, AC104420, AC129980
NM_002499.4 → NP_002490.2 neogenin isoform 1 precursor

See identical proteins and their annotated locations for NP_002490.2

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AB209412, AC129980, AL355708, BC117161, DB458571

Consensus CDS

CCDS10247.1

UniProtKB/Swiss-Prot

B7ZKM9, B7ZKN0, O00340, Q17RX1, Q92859

Related

ENSP00000261908.6, ENST00000261908.11

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:739 → 818

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:539 → 628

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1158 → 1461

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000015.10 Reference GRCh38.p14 Primary Assembly

Range

73051692..73305206

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047432591.1 → XP_047288547.1 neogenin isoform X5
XM_011521628.3 → XP_011519930.1 neogenin isoform X1

See identical proteins and their annotated locations for XP_011519930.1

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:759 → 838

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:559 → 648

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1178 → 1481

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain
XM_011521633.4 → XP_011519935.1 neogenin isoform X11

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:759 → 838

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:559 → 648

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1178 → 1428

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain
XM_011521629.3 → XP_011519931.1 neogenin isoform X2

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:759 → 838

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:559 → 648

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1167 → 1470

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain
XM_017022233.2 → XP_016877722.1 neogenin isoform X12
XM_011521632.3 → XP_011519934.1 neogenin isoform X7

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:759 → 838

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:559 → 648

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1144 → 1447

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain
XM_017022237.2 → XP_016877726.1 neogenin isoform X18
XM_011521630.3 → XP_011519932.1 neogenin isoform X3

Conserved Domains (9) summary

cd05722
Location:54 → 148

Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00408
Location:262 → 326

IGc2; Immunoglobulin C-2 Type

cd05723
Location:357 → 427

Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins

smart00060
Location:759 → 838

FN3; Fibronectin type 3 domain

smart00410
Location:158 → 239

IG_like; Immunoglobulin like

cd00063
Location:559 → 648

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:341 → 427

I-set; Immunoglobulin I-set domain

pfam06583
Location:1162 → 1465

Neogenin_C; Neogenin C-terminus

pfam13895
Location:157 → 239

Ig_2; Immunoglobulin domain
XM_017022234.2 → XP_016877723.1 neogenin isoform X13
XM_047432587.1 → XP_047288543.1 neogenin isoform X5
XM_047432595.1 → XP_047288551.1 neogenin isoform X16
XM_047432590.1 → XP_047288546.1 neogenin isoform X10
XM_047432586.1 → XP_047288542.1 neogenin isoform X4

UniProtKB/Swiss-Prot

B7ZKM9, B7ZKN0, O00340, Q17RX1, Q92859

Related

ENSP00000341198.5, ENST00000339362.9
XM_047432593.1 → XP_047288549.1 neogenin isoform X15
XM_047432596.1 → XP_047288552.1 neogenin isoform X17
XM_047432589.1 → XP_047288545.1 neogenin isoform X8
XM_017022231.2 → XP_016877720.1 neogenin isoform X9
XM_047432598.1 → XP_047288554.1 neogenin isoform X19
XM_047432592.1 → XP_047288548.1 neogenin isoform X14
XM_047432600.1 → XP_047288556.1 neogenin isoform X20
XM_017022232.2 → XP_016877721.1 neogenin isoform X5

Conserved Domains (8) summary

smart00060
Location:759 → 838

FN3; Fibronectin type 3 domain

smart00409
Location:158 → 239

IG; Immunoglobulin

cd00063
Location:559 → 648

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam06583
Location:1151 → 1454

Neogenin_C; Neogenin C-terminus

pfam07679
Location:250 → 337

I-set; Immunoglobulin I-set domain

cd00096
Location:252 → 255

Ig; Ig strand A [structural motif]

cd05722
Location:52 → 148

IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cd05723
Location:344 → 427

IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
XM_047432599.1 → XP_047288555.1 neogenin isoform X16
XM_047432594.1 → XP_047288550.1 neogenin isoform X8
XM_047432597.1 → XP_047288553.1 neogenin isoform X9
XM_047432601.1 → XP_047288557.1 neogenin isoform X21