Nrxn1 (neurexin 1) - Rat Genome Database

Name: Nrxn1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Nrxn1 (neurexin 1) Ictidomys tridecemlineatus

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Symbol:

Nrxn1

Name:

neurexin 1

RGD ID:

12545890

Description:

ENCODES a protein that exhibits acetylcholine receptor binding (ortholog); calcium channel regulator activity (ortholog); calcium ion binding (ortholog); INVOLVED IN adult behavior (ortholog); AMPA selective glutamate receptor signaling pathway (ortholog); calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); CHROMOSOME 2p16.3 DELETION SYNDROME (ortholog); FOUND IN axonal growth cone (ortholog); cell surface (ortholog); endocytic vesicle (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

neurexin-1; neurexin-1-beta

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	NRXN1 (neurexin 1)	NCBI	Ortholog
Mus musculus (house mouse):	Nrxn1 (neurexin I)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Nrxn1 (neurexin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Nrxn1 (neurexin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NRXN1 (neurexin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NRXN1 (neurexin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NRXN1 (neurexin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NRXN1 (neurexin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nrxn1 (neurexin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	30,455,821 - 31,526,486 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936508	1,889,640 - 2,954,039 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autism spectrum disorder (ISO)

autistic disorder (ISO)

CHROMOSOME 2p16.3 DELETION SYNDROME (ISO)

Craniofacial Abnormalities (ISO)

genetic disease (ISO)

intellectual disability (ISO)

Language Development Disorders (ISO)

Multiple Abnormalities (ISO)

Neurodevelopmental Disorders (ISO)

obesity (ISO)

ovarian dysgenesis 3 (ISO)

Pitt-Hopkins syndrome (ISO)

Pitt-Hopkins-like syndrome 2 (ISO)

schizophrenia (ISO)

SCHIZOPHRENIA 17 (ISO)

transient cerebral ischemia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

adult behavior (ISO)

AMPA selective glutamate receptor signaling pathway (ISO)

calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules (ISO)

cellular response to calcium ion (ISO)

cerebellar granule cell differentiation (ISO)

chemical synaptic transmission (ISO)

circadian rhythm (ISO)

establishment of protein localization (ISO)

filopodium assembly (ISO)

gamma-aminobutyric acid receptor clustering (ISO)

gephyrin clustering involved in postsynaptic density assembly (ISO)

guanylate kinase-associated protein clustering (ISO)

heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules (ISO)

learning (ISO)

negative regulation of filopodium assembly (ISO)

negative regulation of gene expression (ISO)

neuroligin clustering involved in postsynaptic membrane assembly (ISO)

neuromuscular process controlling balance (ISO)

neuron cell-cell adhesion (ISO)

neuron maturation (ISO)

neuron projection development (ISO)

neurotransmitter secretion (ISO)

NMDA glutamate receptor clustering (ISO)

NMDA selective glutamate receptor signaling pathway (ISO)

positive regulation of cAMP-mediated signaling (ISO)

positive regulation of ERK1 and ERK2 cascade (ISO)

positive regulation of excitatory postsynaptic potential (ISO)

positive regulation of fibroblast growth factor receptor signaling pathway (ISO)

positive regulation of gene expression (ISO)

positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (ISO)

positive regulation of phospholipase C-activating G protein-coupled receptor signaling pathway (ISO)

positive regulation of protein localization to plasma membrane (ISO)

positive regulation of synapse assembly (ISO)

positive regulation of synapse maturation (ISO)

positive regulation of synaptic transmission, glutamatergic (ISO)

postsynaptic density protein 95 clustering (ISO)

postsynaptic membrane assembly (ISO)

prepulse inhibition (ISO)

presynapse assembly (ISO)

presynaptic membrane assembly (ISO)

protein localization to synapse (ISO)

protein-containing complex assembly involved in synapse maturation (ISO)

receptor localization to synapse (ISO)

regulation of grooming behavior (ISO)

regulation of postsynaptic density assembly (ISO)

regulation of postsynaptic specialization assembly (ISO)

regulation of presynapse assembly (ISO)

regulation of synaptic vesicle cycle (ISO)

regulation of trans-synaptic signaling by endocannabinoid, modulating synaptic transmission (ISO)

signal transduction (ISO)

social behavior (ISO)

synapse assembly (ISO)

synaptic membrane adhesion (ISO)

synaptic vesicle clustering (ISO)

trans-synaptic signaling, modulating synaptic transmission (ISO)

vesicle docking involved in exocytosis (ISO)

vocal learning (ISO)

vocalization behavior (ISO)

Cellular Component

axonal growth cone (ISO)

cell surface (ISO)

endocytic vesicle (ISO)

endoplasmic reticulum (ISO)

GABA-ergic synapse (ISO)

glutamatergic synapse (ISO)

neuronal cell body (ISO)

nuclear membrane (ISO)

nucleolus (ISO)

plasma membrane (ISO)

presynaptic active zone membrane (ISO)

presynaptic membrane (ISO)

protein complex involved in cell-cell adhesion (ISO)

protein-containing complex (ISO)

Schaffer collateral - CA1 synapse (ISO)

slit diaphragm (ISO)

trans-synaptic protein complex (ISO)

vesicle (ISO)

Molecular Function

acetylcholine receptor binding (ISO)

calcium channel regulator activity (ISO)

calcium ion binding (ISO)

calcium-dependent protein binding (ISO)

cell adhesion molecule binding (ISO)

neuroligin family protein binding (ISO)

protein binding (ISO)

protein-containing complex binding (ISO)

signaling receptor binding (ISO)

transmembrane signaling receptor activity (ISO)

type 1 fibroblast growth factor receptor binding (ISO)

References

Genomics

Comparative Map Data

Nrxn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	30,455,821 - 31,526,486 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936508	1,889,640 - 2,954,039 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NRXN1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	49,918,503 - 51,032,132 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	49,918,503 - 51,225,575 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	50,145,641 - 51,259,270 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	50,000,992 - 51,113,178 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	50,059,138 - 50,486,545	NCBI
Celera	2	49,985,850 - 51,099,841 (-)	NCBI		Celera
Cytogenetic Map	2	p16.3	NCBI
HuRef	2	49,879,094 - 50,994,141 (-)	NCBI		HuRef
CHM1_1	2	50,076,199 - 51,190,490 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	49,914,520 - 51,028,290 (-)	NCBI		T2T-CHM13v2.0

Nrxn1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	90,341,072 - 91,400,587 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	90,341,059 - 91,400,499 (-)	Ensembl		GRCm39 Ensembl
GRCm38	17	90,033,644 - 91,093,159 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	90,033,631 - 91,093,071 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	90,432,984 - 91,492,142 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	90,433,296 - 91,492,142 (-)	NCBI		MGSCv36	mm8
Celera	17	94,417,402 - 95,489,954 (-)	NCBI		Celera
Cytogenetic Map	17	E5	NCBI
cM Map	17	59.73	NCBI

Nrxn1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	8,931,360 - 10,077,381 (+)	NCBI		GRCr8
mRatBN7.2	6	3,177,788 - 4,323,848 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	3,177,897 - 4,322,710 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	3,476,659 - 4,613,908 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	3,786,080 - 4,923,338 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	3,310,521 - 4,447,776 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	13,886,757 - 15,191,660 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	13,886,740 - 15,191,660 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	24,704,937 - 25,145,167 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Rnor_5.0	6	23,843,153 - 24,482,073 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	14,050,929 - 15,354,069 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	15,245,705 - 15,354,069 (-)	NCBI
Celera	6	2,975,004 - 4,118,378 (+)	NCBI		Celera
Cytogenetic Map	6	q11-q12	NCBI

Nrxn1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955441	16,234,070 - 17,178,005 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955441	16,230,977 - 17,178,003 (-)	NCBI	ChiLan1.0	ChiLan1.0

NRXN1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	12	75,325,549 - 76,440,534 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	75,329,515 - 76,444,501 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	50,063,398 - 51,178,659 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	50,981,997 - 52,095,538 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	50,985,067 - 52,091,277 (-)	Ensembl	panpan1.1		panPan2

NRXN1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	51,555,660 - 52,666,774 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	51,558,452 - 52,667,569 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	51,401,804 - 52,511,290 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	52,431,369 - 53,560,787 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	10	52,431,572 - 53,564,557 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	10	52,126,286 - 53,234,452 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	10	52,413,764 - 53,524,238 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	52,609,896 - 53,719,985 (-)	NCBI		UU_Cfam_GSD_1.0

NRXN1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	89,803,519 - 90,382,034 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	89,799,426 - 90,914,205 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	95,543,189 - 96,298,412 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NRXN1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	56,051,849 - 57,202,334 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666045	54,638,899 - 55,766,868 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Nrxn1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624738	31,133,346 - 32,273,565 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624738	31,134,551 - 32,273,596 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_021725890	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040271319	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010001352	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_040271319 ⟹ XP_040127253

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024406292	30,455,821 - 31,526,486 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_040127253	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	KAG3267331	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_040127253 ⟸ XM_040271319

Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	Nrxn1	ENTREZGENE

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM