Neo1 neogenin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Neo1provided by RGD
Official Full Name: neogenin 1provided by RGD
Primary source: RGD:619837
See related: Ensembl:ENSRNOG00000006490 AllianceGenome:RGD:619837
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including BMP receptor binding activity; cadherin binding activity; and co-receptor binding activity. Involved in negative regulation of neuron death. Located in neuronal cell body. Orthologous to human NEO1 (neogenin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 120.0), Kidney (RPKM 120.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (68169711..68322158, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (59273860..59426486, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (63649871..63756394, complement)

Chromosome 8 - NC_086026.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Neogenin colocalizes with SOX2 in dissociated hippocampal neurons.
Title: The co-expression of Neogenin with SOX2 in hippocampal neurons.
The addition of RGMa increased retinal ganglion cell survival. This effect was mediated by the Neogenin receptor.
Title: The repulsive guidance molecule, RGMa, promotes retinal ganglion cell survival in vitro and in vivo.
Results support that hepatic neogenin possesses two functions, mediation of cellular HJV release, and stimulation of HJV-enhanced hepcidin expression.
Title: Hemojuvelin-neogenin interaction is required for bone morphogenic protein-4-induced hepcidin expression.
Results show that the serine/threonine kinase death-associated protein kinase (DAPK) is involved in the signal transduction of neogenin.
Title: Neogenin regulates neuronal survival through DAP kinase.
neogenin was expressed in endothelial cells at MCA territory with a peak at 14 days after ischemia.
Title: Expression of netrin-1 and its receptors DCC and neogenin in rat brain after ischemia.
RGMa-mediated neogenin signal transduction pathway involved in axonal guidance.
Title: Neogenin-RGMa signaling at the growth cone is bone morphogenetic protein-independent and involves RhoA, ROCK, and PKC.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH140142 (e-PCR)
- UniSTS:222221

AU048996 (e-PCR)
- UniSTS:145444

RH135625 (e-PCR)
- UniSTS:164912

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

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

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

RH135275 (e-PCR)
- UniSTS:218552

RH129374 (e-PCR)
- UniSTS:212681

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables BMP receptor binding	IEA Inferred from Electronic Annotation more info
enables BMP receptor binding	ISO Inferred from Sequence Orthology more info
enables cadherin binding	IEA Inferred from Electronic Annotation more info
enables cadherin binding	ISO Inferred from Sequence Orthology more info
enables co-receptor binding	IEA Inferred from Electronic Annotation more info
enables co-receptor binding	ISO Inferred from Sequence Orthology more info
enables signaling receptor activity	IEA Inferred from Electronic Annotation more info
enables signaling receptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
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 intracellular iron ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in multicellular organismal-level iron ion homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organismal-level iron ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in myoblast fusion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within myoblast fusion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axon regeneration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of axon regeneration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of protein secretion	ISO Inferred from Sequence Orthology 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
acts_upstream_of_or_within positive regulation of BMP signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in protein secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of protein secretion	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of axon regeneration	ISO Inferred from Sequence Orthology more info
involved_in trans-synaptic signaling, modulating synaptic transmission	ISO Inferred from Sequence Orthology more info

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	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in growth cone	IEA Inferred from Electronic Annotation more info
located_in growth cone	ISO Inferred from Sequence Orthology more info
located_in intracellular vesicle	IEA Inferred from Electronic Annotation more info
located_in intracellular vesicle	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
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
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	ISO Inferred from Sequence Orthology more info

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_001419532.1 → NP_001406461.1 neogenin precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A0A8I5ZV53

Related

ENSRNOP00000082559.1, ENSRNOT00000103674.1

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

68169711..68322158 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039082421.2 → XP_038938349.1 neogenin isoform X13

UniProtKB/Swiss-Prot

P97603

Conserved Domains (7) summary

smart00060
Location:645 → 724

FN3; Fibronectin type 3 domain

cd00063
Location:445 → 534

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:1064 → 1367

Neogenin_C; Neogenin C-terminus

cd00096
Location:263 → 266

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:263 → 348

Ig; Immunoglobulin domain
XM_063266212.1 → XP_063122282.1 neogenin isoform X7
XM_063266211.1 → XP_063122281.1 neogenin isoform X6
XM_039082417.2 → XP_038938345.1 neogenin isoform X5

UniProtKB/Swiss-Prot

P97603

Conserved Domains (7) 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 ...

pfam06583
Location:1158 → 1461

Neogenin_C; Neogenin C-terminus

cd00096
Location:263 → 266

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:263 → 348

Ig; Immunoglobulin domain
XM_039082419.2 → XP_038938347.1 neogenin isoform X11

UniProtKB/Swiss-Prot

P97603

Conserved Domains (7) 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 ...

pfam06583
Location:1169 → 1419

Neogenin_C; Neogenin C-terminus

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:265 → 348

Ig; Immunoglobulin domain
XM_039082415.2 → XP_038938343.1 neogenin isoform X3

UniProtKB/Swiss-Prot

P97603

Conserved Domains (7) 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 ...

pfam06583
Location:1169 → 1472

Neogenin_C; Neogenin C-terminus

cd00096
Location:263 → 266

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:263 → 348

Ig; Immunoglobulin domain
XM_063266216.1 → XP_063122286.1 neogenin isoform X12

UniProtKB/TrEMBL

A0A8I5ZQS8
XM_039082416.2 → XP_038938344.1 neogenin isoform X4

UniProtKB/Swiss-Prot

P97603

Conserved Domains (7) 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 ...

pfam06583
Location:1162 → 1465

Neogenin_C; Neogenin C-terminus

cd00096
Location:263 → 266

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:263 → 348

Ig; Immunoglobulin domain
XM_063266214.1 → XP_063122284.1 neogenin isoform X10
XM_039082414.2 → XP_038938342.1 neogenin isoform X2

UniProtKB/Swiss-Prot

P97603

Conserved Domains (7) 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 ...

pfam06583
Location:1173 → 1476

Neogenin_C; Neogenin C-terminus

cd00096
Location:263 → 266

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:263 → 348

Ig; Immunoglobulin domain
XM_063266213.1 → XP_063122283.1 neogenin isoform X9
XM_039082413.2 → XP_038938341.1 neogenin isoform X1

UniProtKB/Swiss-Prot

P97603

UniProtKB/TrEMBL

A0A8I5Y1H5

Related

ENSRNOP00000077374.1

Conserved Domains (7) 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 ...

pfam06583
Location:1178 → 1481

Neogenin_C; Neogenin C-terminus

cd00096
Location:263 → 266

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:263 → 348

Ig; Immunoglobulin domain
XM_039082418.2 → XP_038938346.1 neogenin isoform X8

UniProtKB/Swiss-Prot

P97603

Conserved Domains (7) 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 ...

pfam06583
Location:1189 → 1439

Neogenin_C; Neogenin C-terminus

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:265 → 348

Ig; Immunoglobulin domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001191881.1: Suppressed sequence

Description

NM_001191881.1: This RefSeq was temporarily suppressed because currently there is not sufficient data to support this transcript.