Neo1 neogenin [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Neo1provided by MGI
Official Full Name: neogeninprovided by MGI
Primary source: MGI:MGI:1097159
See related: Ensembl:ENSMUSG00000032340 AllianceGenome:MGI:1097159
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Igdcc2; 2610028H22Rik; D930014N22Rik
Summary: Enables BMP receptor binding activity; cadherin binding activity; and signaling receptor activity. Involved in trans-synaptic signaling, modulating synaptic transmission. Acts upstream of or within several processes, including myoblast fusion; negative regulation of axon regeneration; and positive regulation of BMP signaling pathway. Located in several cellular components, including cell surface; growth cone; and intracellular vesicle. Is active in glutamatergic synapse and postsynaptic density membrane. Is expressed in several structures, including alimentary system; genitourinary system; limb; nervous system; and sensory organ. Orthologous to human NEO1 (neogenin 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in CNS E18 (RPKM 24.1), limb E14.5 (RPKM 22.5) and 24 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 B; 9 31.81 cM

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (58781962..58943926, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (58874679..59036614, complement)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Macrophage neogenin deficiency exacerbates myocardial remodeling and inflammation after acute myocardial infarction through JAK1-STAT1 signaling.
Title: Macrophage neogenin deficiency exacerbates myocardial remodeling and inflammation after acute myocardial infarction through JAK1-STAT1 signaling.
Down-Regulation of Neogenin Decreases Proliferation and Differentiation of Spermatogonia during the Early Phase of Spermatogenesis.
Title: Down-Regulation of Neogenin Decreases Proliferation and Differentiation of Spermatogonia during the Early Phase of Spermatogenesis.
Neogenin pathway positively regulates fibronectin production by glomerular mesangial cells.
Title: Neogenin pathway positively regulates fibronectin production by glomerular mesangial cells.
Transsynaptic cerebellin 4-neogenin 1 signaling mediates LTP in the mouse dentate gyrus.
Title: Transsynaptic cerebellin 4-neogenin 1 signaling mediates LTP in the mouse dentate gyrus.
Linking cortical astrocytic neogenin deficiency to the development of Moyamoya disease-like vasculopathy.
Title: Linking cortical astrocytic neogenin deficiency to the development of Moyamoya disease-like vasculopathy.
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.
Hepatocyte neogenin is required for hemojuvelin-mediated hepcidin expression and iron homeostasis in mice.
Title: Hepatocyte neogenin is required for hemojuvelin-mediated hepcidin expression and iron homeostasis in mice.
RGMa can induce skeletal muscle cell hyperplasia via association with neogenin signalling pathway.
Title: RGMa can induce skeletal muscle cell hyperplasia via association with neogenin signalling pathway.
Astrocytic neogenin/netrin-1 pathway promotes blood vessel homeostasis and function in mouse cortex.
Title: Astrocytic neogenin/netrin-1 pathway promotes blood vessel homeostasis and function in mouse cortex.
Neogenin-loss in neural crest cells results in persistent hyperplastic primary vitreous formation.
Title: Neogenin-loss in neural crest cells results in persistent hyperplastic primary vitreous formation.

Submit: New GeneRIF Correction See all GeneRIFs (40)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Gene trapped (2) 1 citation
Targeted (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BB243938 (e-PCR)
- UniSTS:208385

AI327052 (e-PCR)
- UniSTS:165640

RH135625 (e-PCR)
- UniSTS:164912

Neo1 (e-PCR), detects polymorphism
- UniSTS:471093

Neo1 (e-PCR), detects polymorphism
- UniSTS:471094

Neo1 (e-PCR), detects polymorphism
- UniSTS:471095

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

NoName (e-PCR)
- UniSTS:548201

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

NoName (e-PCR)
- UniSTS:236148

RH129374 (e-PCR)
- UniSTS:212681

Gene Ontology Provided by MGI

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

Process	Evidence Code	Pubs
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within intracellular iron ion homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within multicellular organismal-level iron ion homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within myoblast fusion	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of axon regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of protein secretion	IDA Inferred from Direct Assay more info	PubMed
involved_in neuron migration	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of BMP signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of protein secretion	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of axon regeneration	IGI Inferred from Genetic Interaction more info	PubMed
involved_in trans-synaptic signaling, modulating synaptic transmission	IDA Inferred from Direct Assay more info	PubMed
involved_in trans-synaptic signaling, modulating synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
is_active_in axonal growth cone	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in glutamatergic synapse	NAS Non-traceable Author Statement more info	PubMed
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in intracellular vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	TAS Traceable Author Statement more info
part_of plasma membrane protein complex	IEA Inferred from Electronic Annotation more info
part_of plasma membrane protein complex	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in postsynaptic density membrane	NAS Non-traceable Author Statement more info	PubMed

General protein information

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Preferred Names: neogenin

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.

mRNA and Protein(s)

NM_001042752.2 → NP_001036217.1 neogenin isoform 2 precursor

See identical proteins and their annotated locations for NP_001036217.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice site and lacks an exon in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.

Source sequence(s)

AC110530, CT033754

Consensus CDS

CCDS90582.1

UniProtKB/TrEMBL

Q7TQG5

Related

ENSMUSP00000150600.2, ENSMUST00000214547.2

Conserved Domains (7) summary

cd05722
Location:65 → 159

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

smart00408
Location:274 → 337

IGc2; Immunoglobulin C-2 Type

cd05723
Location:368 → 438

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

smart00060
Location:770 → 849

FN3; Fibronectin type 3 domain

cd00063
Location:570 → 659

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:352 → 438

I-set; Immunoglobulin I-set domain

pfam06583
Location:1162 → 1465

Neogenin_C; Neogenin C-terminus
NM_001408269.1 → NP_001395198.1 neogenin isoform 3 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408270.1 → NP_001395199.1 neogenin isoform 4 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408271.1 → NP_001395200.1 neogenin isoform 5 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408272.1 → NP_001395201.1 neogenin isoform 6 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408273.1 → NP_001395202.1 neogenin isoform 7 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408274.1 → NP_001395203.1 neogenin isoform 8 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408275.1 → NP_001395204.1 neogenin isoform 9 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408276.1 → NP_001395205.1 neogenin isoform 10 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_001408277.1 → NP_001395206.1 neogenin isoform 11 precursor

Status: VALIDATED

Source sequence(s)

AC110530, CT033754
NM_008684.3 → NP_032710.2 neogenin isoform 1 precursor

Status: VALIDATED

Description

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

Source sequence(s)

AC110530, CT033754

Consensus CDS

CCDS23246.1

UniProtKB/Swiss-Prot

P97798

UniProtKB/TrEMBL

E9QK04

Related

ENSMUSP00000063656.6, ENSMUST00000068664.7

Conserved Domains (7) summary

cd05722
Location:65 → 159

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

smart00408
Location:274 → 337

IGc2; Immunoglobulin C-2 Type

cd05723
Location:368 → 438

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

smart00060
Location:770 → 849

FN3; Fibronectin type 3 domain

cd00063
Location:570 → 659

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:352 → 438

I-set; Immunoglobulin I-set domain

pfam06583
Location:1189 → 1492

Neogenin_C; Neogenin C-terminus

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000075.7 Reference GRCm39 C57BL/6J

Range

58781962..58943926 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036154679.1 → XP_036010572.1 neogenin isoform X14

Conserved Domains (9) summary

smart00060
Location:750 → 829

FN3; Fibronectin type 3 domain

cd00063
Location:550 → 639

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 ...

pfam00041
Location:647 → 732

fn3; Fibronectin type III domain

pfam06583
Location:1142 → 1392

Neogenin_C; Neogenin C-terminus

pfam07679
Location:261 → 348

I-set; Immunoglobulin I-set domain

cd00096
Location:268 → 272

Ig; Ig strand A' [structural motif]

cd05722
Location:63 → 159

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:355 → 438

IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:163 → 250

Ig; Immunoglobulin domain
XM_036154678.1 → XP_036010571.1 neogenin isoform X13

Conserved Domains (9) summary

smart00060
Location:750 → 829

FN3; Fibronectin type 3 domain

cd00063
Location:550 → 639

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 ...

pfam00041
Location:647 → 732

fn3; Fibronectin type III domain

pfam06583
Location:1153 → 1403

Neogenin_C; Neogenin C-terminus

pfam07679
Location:261 → 348

I-set; Immunoglobulin I-set domain

cd00096
Location:268 → 272

Ig; Ig strand A' [structural motif]

cd05722
Location:63 → 159

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:355 → 438

IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:163 → 250

Ig; Immunoglobulin domain
XM_030244107.2 → XP_030099967.1 neogenin isoform X5

Conserved Domains (8) summary

cd05722
Location:65 → 159

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

cd05723
Location:368 → 438

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

smart00060
Location:750 → 829

FN3; Fibronectin type 3 domain

cd00063
Location:550 → 639

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 ...

pfam00041
Location:647 → 730

fn3; Fibronectin type III domain

pfam06583
Location:1153 → 1456

Neogenin_C; Neogenin C-terminus

pfam07679
Location:261 → 348

I-set; Immunoglobulin I-set domain

cl11960
Location:163 → 250

Ig; Immunoglobulin domain
XM_036154677.1 → XP_036010570.1 neogenin isoform X12

Conserved Domains (9) summary

smart00060
Location:750 → 829

FN3; Fibronectin type 3 domain

cd00063
Location:550 → 639

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 ...

pfam00041
Location:647 → 732

fn3; Fibronectin type III domain

pfam06583
Location:1158 → 1408

Neogenin_C; Neogenin C-terminus

pfam07679
Location:261 → 348

I-set; Immunoglobulin I-set domain

cd00096
Location:268 → 272

Ig; Ig strand A' [structural motif]

cd05722
Location:63 → 159

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:355 → 438

IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:163 → 250

Ig; Immunoglobulin domain
XM_036154675.1 → XP_036010568.1 neogenin isoform X9

Conserved Domains (9) summary

smart00060
Location:770 → 849

FN3; Fibronectin type 3 domain

cd00063
Location:570 → 659

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 ...

pfam00041
Location:667 → 752

fn3; Fibronectin type III domain

pfam06583
Location:1173 → 1423

Neogenin_C; Neogenin C-terminus

pfam07679
Location:261 → 348

I-set; Immunoglobulin I-set domain

cd00096
Location:268 → 272

Ig; Ig strand A' [structural motif]

cd05722
Location:63 → 159

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:355 → 438

IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:163 → 250

Ig; Immunoglobulin domain