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Nrxn1 neurexin 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 60391, updated on 13-Aug-2019

Summary

Official Symbol
Nrxn1provided by RGD
Official Full Name
neurexin 1provided by RGD
Primary source
RGD:628659
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
Also known as
Nrxn1b
Summary
This gene encodes a single-pass type I membrane protein that belongs to the neurexin family. Neurexins are synaptic transmembrane receptors that bind endogenous ligands that include neuroligins, dystroglycan, and neurexophilins. Neurexin complexes are required for efficient neurotransmission and are involved in synaptogenesis. In vertebrates, alternate promoter usage results in multiple isoform classes, of which the alpha and beta classes are the best characterized. In humans, allelic variants in this gene are associated with Pitt-Hopkins-like syndrome-2, while deletions have been associated with autism and schizophrenia. Mouse knockouts display decreased spontaneous and evoked vesicle release resulting in impaired synaptic transmission. In addition, knockout mice show altered social approach, reduced social investigation, reduced locomotor activity, and in males, increased aggression. [provided by RefSeq, Nov 2016]
Annotation information
Note: There is an assembly problem in the Rnor_6.0 reference genome assembly, and therefore, annotation of this gene is split across NW_007905831.1, NW_007905830.1, and NW_007905829.1 in NCBI's Rattus norvegicus Annotation Release 105. [17 Jun 2015]
Annotation category: partial on reference assembly
Expression
Biased expression in Brain (RPKM 575.7), Lung (RPKM 89.2) and 4 other tissues See more
Orthologs

Genomic context

See Nrxn1 in Genome Data Viewer
Location:
6q12
Exon count:
27
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (13886757..15191660, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 6 NC_005105.3 (24704937..25145167, complement) , (23843153..24482073, complement)

Chromosome 6 - NC_005105.4Genomic Context describing neighboring genes Neighboring gene MLV-related proviral Env polyprotein-like Neighboring gene similar to Polypyrimidine tract-binding protein 1 (PTB) (Heterogeneous nuclear ribonucleoprotein I) (hnRNP I) Neighboring gene polypyrimidine tract-binding protein 1-like Neighboring gene high mobility group protein B3 pseudogene Neighboring gene 60S ribosomal protein L10a pseudogene Neighboring gene uncharacterized LOC102550556 Neighboring gene uncharacterized LOC102550908 Neighboring gene AP-2 complex subunit mu-like Neighboring gene uncharacterized LOC103692561 Neighboring gene similar to Glycogen [starch] synthase, muscle Neighboring gene uncharacterized LOC108351175 Neighboring gene uncharacterized LOC108351176

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
acetylcholine receptor binding ISO
Inferred from Sequence Orthology
more info
PubMed 
acetylcholine receptor binding ISS
Inferred from Sequence or Structural Similarity
more info
 
calcium channel regulator activity ISO
Inferred from Sequence Orthology
more info
PubMed 
calcium channel regulator activity ISS
Inferred from Sequence or Structural Similarity
more info
 
calcium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
calcium-dependent protein binding ISO
Inferred from Sequence Orthology
more info
PubMed 
calcium-dependent protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
cell adhesion molecule binding IPI
Inferred from Physical Interaction
more info
PubMed 
cell adhesion molecule binding ISO
Inferred from Sequence Orthology
more info
PubMed 
cell adhesion molecule binding ISS
Inferred from Sequence or Structural Similarity
more info
 
neuroligin family protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
neuroligin family protein binding ISO
Inferred from Sequence Orthology
more info
PubMed 
neuroligin family protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
signaling receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
transmembrane signaling receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
transmembrane signaling receptor activity ISO
Inferred from Sequence Orthology
more info
PubMed 
type 1 fibroblast growth factor receptor binding ISO
Inferred from Sequence Orthology
more info
PubMed 
Process Evidence Code Pubs
NMDA glutamate receptor clustering ISO
Inferred from Sequence Orthology
more info
PubMed 
NMDA glutamate receptor clustering ISS
Inferred from Sequence or Structural Similarity
more info
 
adult behavior IEA
Inferred from Electronic Annotation
more info
 
adult behavior ISO
Inferred from Sequence Orthology
more info
PubMed 
adult behavior ISS
Inferred from Sequence or Structural Similarity
more info
 
angiogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules ISO
Inferred from Sequence Orthology
more info
PubMed 
calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules ISS
Inferred from Sequence or Structural Similarity
more info
 
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cellular response to calcium ion IDA
Inferred from Direct Assay
more info
PubMed 
cerebellar granule cell differentiation ISO
Inferred from Sequence Orthology
more info
PubMed 
cerebellar granule cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
chemical synaptic transmission ISO
Inferred from Sequence Orthology
more info
PubMed 
chemical synaptic transmission ISS
Inferred from Sequence or Structural Similarity
more info
 
circadian rhythm IEP
Inferred from Expression Pattern
more info
PubMed 
establishment of protein localization ISO
Inferred from Sequence Orthology
more info
PubMed 
establishment of protein localization ISS
Inferred from Sequence or Structural Similarity
more info
 
filopodium assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
gamma-aminobutyric acid receptor clustering ISO
Inferred from Sequence Orthology
more info
PubMed 
gamma-aminobutyric acid receptor clustering ISS
Inferred from Sequence or Structural Similarity
more info
 
gephyrin clustering involved in postsynaptic density assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
gephyrin clustering involved in postsynaptic density assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
guanylate kinase-associated protein clustering ISO
Inferred from Sequence Orthology
more info
PubMed 
guanylate kinase-associated protein clustering ISS
Inferred from Sequence or Structural Similarity
more info
 
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISO
Inferred from Sequence Orthology
more info
PubMed 
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISS
Inferred from Sequence or Structural Similarity
more info
 
learning ISO
Inferred from Sequence Orthology
more info
PubMed 
learning ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of filopodium assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of filopodium assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of gene expression ISO
Inferred from Sequence Orthology
more info
PubMed 
neuroligin clustering involved in postsynaptic membrane assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
neuroligin clustering involved in postsynaptic membrane assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
neuromuscular process controlling balance ISO
Inferred from Sequence Orthology
more info
PubMed 
NOT neuromuscular process controlling balance ISO
Inferred from Sequence Orthology
more info
PubMed 
neuromuscular process controlling balance ISS
Inferred from Sequence or Structural Similarity
more info
 
neuron cell-cell adhesion ISO
Inferred from Sequence Orthology
more info
PubMed 
neuron cell-cell adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
neuron cell-cell adhesion TAS
Traceable Author Statement
more info
PubMed 
neuron maturation ISO
Inferred from Sequence Orthology
more info
PubMed 
neuron projection development ISO
Inferred from Sequence Orthology
more info
PubMed 
neurotransmitter secretion ISO
Inferred from Sequence Orthology
more info
PubMed 
neurotransmitter secretion ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of ERK1 and ERK2 cascade ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of excitatory postsynaptic potential ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of excitatory postsynaptic potential ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of fibroblast growth factor receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of peptidyl-serine phosphorylation ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of presynaptic active zone assembly TAS
Traceable Author Statement
more info
PubMed 
positive regulation of protein kinase A signaling ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of protein kinase B signaling ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of protein kinase C activity ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of protein localization to plasma membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of protein localization to plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of synapse assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of synapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of synapse assembly TAS
Traceable Author Statement
more info
PubMed 
positive regulation of synapse maturation ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of synapse maturation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of synaptic transmission, glutamatergic ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of synaptic transmission, glutamatergic ISS
Inferred from Sequence or Structural Similarity
more info
 
postsynaptic density protein 95 clustering ISO
Inferred from Sequence Orthology
more info
PubMed 
postsynaptic density protein 95 clustering ISS
Inferred from Sequence or Structural Similarity
more info
 
postsynaptic membrane assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
postsynaptic membrane assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
prepulse inhibition ISO
Inferred from Sequence Orthology
more info
PubMed 
prepulse inhibition ISS
Inferred from Sequence or Structural Similarity
more info
 
presynapse assembly EXP
Inferred from Experiment
more info
PubMed 
presynapse assembly IDA
Inferred from Direct Assay
more info
PubMed 
presynaptic membrane assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
presynaptic membrane assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
protein heterotetramerization IDA
Inferred from Direct Assay
more info
PubMed 
protein localization to synapse ISO
Inferred from Sequence Orthology
more info
PubMed 
protein localization to synapse ISS
Inferred from Sequence or Structural Similarity
more info
 
protein-containing complex assembly involved in synapse maturation ISO
Inferred from Sequence Orthology
more info
PubMed 
protein-containing complex assembly involved in synapse maturation ISS
Inferred from Sequence or Structural Similarity
more info
 
receptor localization to synapse ISO
Inferred from Sequence Orthology
more info
PubMed 
receptor localization to synapse ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of AMPA receptor activity ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of AMPA receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of NMDA receptor activity ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of NMDA receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of grooming behavior ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of grooming behavior ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of insulin secretion involved in cellular response to glucose stimulus ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of postsynaptic density assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of postsynaptic specialization assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of presynapse assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of synaptic vesicle cycle ISO
Inferred from Sequence Orthology
more info
PubMed 
signal transduction IDA
Inferred from Direct Assay
more info
PubMed 
signal transduction ISO
Inferred from Sequence Orthology
more info
PubMed 
social behavior IEA
Inferred from Electronic Annotation
more info
 
social behavior ISO
Inferred from Sequence Orthology
more info
PubMed 
synapse assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
synapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
synaptic membrane adhesion ISO
Inferred from Sequence Orthology
more info
PubMed 
synaptic vesicle clustering ISO
Inferred from Sequence Orthology
more info
PubMed 
synaptic vesicle clustering ISS
Inferred from Sequence or Structural Similarity
more info
 
trans-synaptic signaling by endocannabinoid ISO
Inferred from Sequence Orthology
more info
PubMed 
vesicle docking involved in exocytosis IMP
Inferred from Mutant Phenotype
more info
PubMed 
vocal learning IEA
Inferred from Electronic Annotation
more info
 
vocal learning ISO
Inferred from Sequence Orthology
more info
PubMed 
vocalization behavior IEA
Inferred from Electronic Annotation
more info
 
vocalization behavior ISO
Inferred from Sequence Orthology
more info
PubMed 
Component Evidence Code Pubs
GABA-ergic synapse ISO
Inferred from Sequence Orthology
more info
PubMed 
Schaffer collateral - CA1 synapse ISO
Inferred from Sequence Orthology
more info
PubMed 
axonal growth cone ISO
Inferred from Sequence Orthology
more info
PubMed 
axonal growth cone ISS
Inferred from Sequence or Structural Similarity
more info
 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
cell surface IEA
Inferred from Electronic Annotation
more info
 
cell surface ISO
Inferred from Sequence Orthology
more info
PubMed 
cell surface ISS
Inferred from Sequence or Structural Similarity
more info
 
endocytic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
PubMed 
endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
 
glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of presynaptic active zone membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
integral component of presynaptic membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
integral component of presynaptic membrane TAS
Traceable Author Statement
more info
PubMed 
neuronal cell body ISO
Inferred from Sequence Orthology
more info
PubMed 
neuronal cell body ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
nuclear membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleolus IEA
Inferred from Electronic Annotation
more info
 
nucleolus ISO
Inferred from Sequence Orthology
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane ISO
Inferred from Sequence Orthology
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
presynaptic membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
presynaptic membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
protein-containing complex ISO
Inferred from Sequence Orthology
more info
PubMed 
colocalizes_with slit diaphragm IDA
Inferred from Direct Assay
more info
PubMed 
vesicle ISO
Inferred from Sequence Orthology
more info
PubMed 
vesicle ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
neurexin-1
Names
neurexin I-alpha
neurexin I-beta
neurexin-1-alpha
neurexin-1-beta
non-processed neurexin I-alpha

NCBI Reference Sequences (RefSeq)

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)

  1. NM_021767.2NP_068535.2  neurexin-1 precursor

    See identical proteins and their annotated locations for NP_068535.2

    Status: PROVISIONAL

    Source sequence(s)
    M96374
    UniProtKB/Swiss-Prot
    Q63372
    Conserved Domains (6) summary
    smart00294
    Location:14521470
    4.1m; putative band 4.1 homologues' binding motif
    smart00282
    Location:503652
    LamG; Laminin G domain
    cd00054
    Location:680713
    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 ...
    cd00110
    Location:30190
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam01034
    Location:14321471
    Syndecan; Syndecan domain
    pfam02210
    Location:9331061
    Laminin_G_2; Laminin G domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005105.4 Reference Rnor_6.0 Primary Assembly

    Range
    13886757..15191660 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000074.1 Alternate Rn_Celera

    Range
    2975004..4118378
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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