Negr1 neuronal growth regulator 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Negr1provided by RGD
Official Full Name: neuronal growth regulator 1provided by RGD
Primary source: RGD:708416
See related: Ensembl:ENSRNOG00000021410 AllianceGenome:RGD:708416
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Involved in brain development and regulation of synapse assembly. Located in dendrite and neuronal cell body. Orthologous to human NEGR1 (neuronal growth regulator 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 356.4), Liver (RPKM 27.6) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 2q45

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (248283164..249015538)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (245624460..246359605)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (262914240..263650441)

Chromosome 2 - NC_086020.1 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?

expression of Etv5, Faim2, Fto, Negr1 but not Sh2b1 is affected by nutritional state in these two areas, and the relationship
Title: Nutritional state affects the expression of the obesity-associated genes Etv5, Faim2, Fto, and Negr1.
These results demonstrate the alteration of modulatory function of Kilon for the number of dendritic synapses concomitant with changes in its localization and detergent solubility during neuronal culture development.
Title: IgLON cell adhesion molecule Kilon is a crucial modulator for synapse number in hippocampal neurons.

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

Negr1 (e-PCR), detects polymorphism
- UniSTS:546581

AU048123 (e-PCR)
- UniSTS:109849

AU028945 (e-PCR)
- UniSTS:116005

RH138127 (e-PCR)
- UniSTS:220214

AU029007 (e-PCR)
- UniSTS:111783

D2Rat70 (e-PCR)
- UniSTS:118719

47.MMHAP35FRH11.seq (e-PCR)
- UniSTS:124652

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
acts_upstream_of_or_within brain development	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell-cell adhesion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cholesterol homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within fat cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in feeding behavior	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within feeding behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lipid droplet formation	ISO Inferred from Sequence Orthology more info
involved_in locomotory behavior	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in neuron projection development	IEA Inferred from Electronic Annotation more info
acts_upstream_of neuron projection development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron projection morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of calcium-mediated signaling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron projection development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of saliva secretion	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within skeletal muscle organ development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within social behavior	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
located_in side of membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: neuronal growth regulator 1

Names: kilon protein; kindred of IgLON

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_021682.2 → NP_067714.1 neuronal growth regulator 1 precursor

See identical proteins and their annotated locations for NP_067714.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q9Z0J8

UniProtKB/TrEMBL

A6HWR8, A6HWR9

Related

ENSRNOP00000072152.2, ENSRNOT00000089396.2

Conserved Domains (3) summary

smart00408
Location:146 → 204

IGc2; Immunoglobulin C-2 Type

smart00410
Location:41 → 129

IG_like; Immunoglobulin like

pfam13927
Location:219 → 295

Ig_3; Immunoglobulin domain

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_086020.1 Reference GRCr8

Range

248283164..249015538

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282428.1 → XP_063138498.1 neuronal growth regulator 1 isoform X1
XM_039103007.2 → XP_038958935.1 neuronal growth regulator 1 isoform X2

UniProtKB/TrEMBL

A0A8I6AJV3, A6HWR9, A6HWS0

Related

ENSRNOP00000094558.1

Conserved Domains (4) summary

smart00408
Location:146 → 204

IGc2; Immunoglobulin C-2 Type

smart00410
Location:41 → 129

IG_like; Immunoglobulin like

pfam13927
Location:219 → 295

Ig_3; Immunoglobulin domain

cd00096
Location:219 → 225

Ig; putative Ig strand A [structural motif]