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NRXN2 neurexin 2 [ Homo sapiens (human) ]

Gene ID: 9379, updated on 10-Mar-2024

Summary

Official Symbol
NRXN2provided by HGNC
Official Full Name
neurexin 2provided by HGNC
Primary source
HGNC:HGNC:8009
See related
Ensembl:ENSG00000110076 MIM:600566; AllianceGenome:HGNC:8009
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a member of the neurexin gene family. The products of these genes function as cell adhesion molecules and receptors in the vertebrate nervous system. These genes utilize two promoters. The majority of transcripts are produced from the upstream promoter and encode alpha-neurexin isoforms while a smaller number of transcripts are produced from the downstream promoter and encode beta-neuresin isoforms. The alpha-neurexins contain epidermal growth factor-like (EGF-like) sequences and laminin G domains, and have been shown to interact with neurexophilins. The beta-neurexins lack EGF-like sequences and contain fewer laminin G domains than alpha-neurexins. Alternative splicing and the use of alternative promoters may generate thousands of transcript variants (PMID: 12036300, PMID: 11944992).[provided by RefSeq, Jun 2010]
Expression
Biased expression in brain (RPKM 25.4), testis (RPKM 3.9) and 2 other tissues See more
Orthologs
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Try the new Transcript table

Genomic context

Location:
11q13.1
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (64606174..64723197, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (64599157..64716433, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (64373646..64490669, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64325867-64326380 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:64327331-64327499 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64332286-64333255 Neighboring gene solute carrier family 22 member 11 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64338776-64339380 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64350049-64350932 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64350933-64351815 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:64352037-64352222 Neighboring gene solute carrier family 22 member 12 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64372269-64373070 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64387298-64387914 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64387915-64388530 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4905 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64404690-64405258 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64414407-64414908 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64414909-64415408 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64415526-64416494 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64419195-64419694 Neighboring gene NRXN2 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64421037-64421537 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4906 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64424651-64425150 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64424149-64424650 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:64426961-64428160 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64455312-64456232 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4907 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64480596-64481379 Neighboring gene Sharpr-MPRA regulatory region 4107 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3481 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4908 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64492769-64493607 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64506559-64507108 Neighboring gene RAS guanyl releasing protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3482 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3483 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3485 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3486 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3487 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64520964-64521574 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64525447-64526151 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64526152-64526855 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64526856-64527560 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64527561-64528263 Neighboring gene glycogen phosphorylase, muscle associated

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide association analyses identify 18 new loci associated with serum urate concentrations.
EBI GWAS Catalog
Genome-wide association study for serum urate concentrations and gout among African Americans identifies genomic risk loci and a novel URAT1 loss-of-function allele.
EBI GWAS Catalog
Genome-wide association study of hematological and biochemical traits in a Japanese population.
EBI GWAS Catalog
Meta-analysis identifies multiple loci associated with kidney function-related traits in east Asian populations.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ40892, KIAA0921

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables calcium channel regulator activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables cell adhesion molecule binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables neuroligin family protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables transmembrane signaling receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
involved_in adult behavior IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in chemical synaptic transmission ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in gephyrin clustering involved in postsynaptic density assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in neuroligin clustering involved in postsynaptic membrane assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in neuron cell-cell adhesion TAS
Traceable Author Statement
more info
PubMed 
involved_in neurotransmitter secretion ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in postsynaptic density protein 95 clustering ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in postsynaptic membrane assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in signal transduction ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in social behavior IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in synapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in vocal learning IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in vocalization behavior IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in presynaptic membrane IEA
Inferred from Electronic Annotation
more info
 
part_of protein-containing complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
neurexin-2-beta
Names
neurexin II

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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.

Genomic

  1. NG_047107.1 RefSeqGene

    Range
    4992..122015
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001376262.1NP_001363191.1  neurexin-2-beta isoform 4 precursor

    Status: REVIEWED

    Source sequence(s)
    AP001092, AP001462
    UniProtKB/TrEMBL
    A0A994J4N8
    Related
    ENSP00000516029.1, ENST00000704781.1
    Conserved Domains (5) summary
    smart00282
    Location:516666
    LamG; Laminin G domain
    cd00054
    Location:694727
    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:28184
    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:14431482
    Syndecan; Syndecan domain
    pfam02210
    Location:9461071
    Laminin_G_2; Laminin G domain
  2. NM_001376263.1NP_001363192.1  neurexin-2-beta isoform 5 precursor

    Status: REVIEWED

    Source sequence(s)
    AP001092, AP001462
    Consensus CDS
    CCDS91500.1
    UniProtKB/TrEMBL
    A0A8I5KY42, A0A994J4N8
    Related
    ENSP00000509497.1, ENST00000688050.1
    Conserved Domains (5) summary
    smart00282
    Location:509659
    LamG; Laminin G domain
    cd00054
    Location:687720
    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:28184
    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:14361475
    Syndecan; Syndecan domain
    pfam02210
    Location:9391064
    Laminin_G_2; Laminin G domain
  3. NM_001376265.1NP_001363194.1  neurexin-2-beta isoform 7 precursor

    Status: REVIEWED

    Source sequence(s)
    AP001092, AP001462
    UniProtKB/TrEMBL
    A0A994J4N8
    Conserved Domains (5) summary
    smart00282
    Location:501651
    LamG; Laminin G domain
    cd00054
    Location:679712
    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:28184
    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:14281467
    Syndecan; Syndecan domain
    pfam02210
    Location:9311056
    Laminin_G_2; Laminin G domain
  4. NM_001376266.1NP_001363195.1  neurexin-2-beta isoform 6 precursor

    Status: REVIEWED

    Source sequence(s)
    AP001092, AP001462
    UniProtKB/TrEMBL
    A0A994J4N8
    Related
    ENSP00000510245.1, ENST00000693456.1
    Conserved Domains (5) summary
    smart00282
    Location:508658
    LamG; Laminin G domain
    cd00054
    Location:686719
    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:28184
    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:14351474
    Syndecan; Syndecan domain
    pfam02210
    Location:9381063
    Laminin_G_2; Laminin G domain
  5. NM_001376267.1NP_001363196.1  neurexin-2-beta isoform 8 precursor

    Status: REVIEWED

    Source sequence(s)
    AP001092, AP001462
    UniProtKB/TrEMBL
    A0A994J4N8
    Related
    ENSP00000508669.1, ENST00000689935.1
    Conserved Domains (5) summary
    smart00282
    Location:509659
    LamG; Laminin G domain
    cd00054
    Location:687720
    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:28184
    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:14061445
    Syndecan; Syndecan domain
    pfam02210
    Location:9391064
    Laminin_G_2; Laminin G domain
  6. NM_001400681.1NP_001387610.1  neurexin-2-beta isoform 9

    Status: REVIEWED

    Source sequence(s)
    AP001092
  7. NM_001400682.1NP_001387611.1  neurexin-2-beta isoform 10

    Status: REVIEWED

    Source sequence(s)
    AP001092
  8. NM_015080.4NP_055895.1  neurexin-2-beta isoform alpha-1 precursor

    See identical proteins and their annotated locations for NP_055895.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (alpha-1) encodes the longest isoform (alpha-1).
    Source sequence(s)
    AP001092, AP001462
    Consensus CDS
    CCDS8077.1
    UniProtKB/Swiss-Prot
    A7E2C1, Q9P2S2, Q9Y2D6
    UniProtKB/TrEMBL
    A0A994J5C3
    Related
    ENSP00000265459.5, ENST00000265459.11
    Conserved Domains (5) summary
    smart00282
    Location:516666
    LamG; Laminin G domain
    cd00054
    Location:694727
    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:28184
    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:16371676
    Syndecan; Syndecan domain
    pfam02210
    Location:9461074
    Laminin_G_2; Laminin G domain
  9. NM_138732.3NP_620060.1  neurexin-2-beta isoform alpha-2 precursor

    See identical proteins and their annotated locations for NP_620060.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (alpha-2) lacks 3 exons and a portion from a fourth exon in the coding region, as compared to variant alpha-2. It encodes isoform alpha-2 which is missing 4 internal aa fragments but has identical N- and C-termini to isoform alpha-1.
    Source sequence(s)
    AB023138, AP001092, AP001462
    Consensus CDS
    CCDS31597.1
    UniProtKB/TrEMBL
    G5E9G7
    Related
    ENSP00000366782.3, ENST00000377559.7
    Conserved Domains (5) summary
    smart00282
    Location:485635
    LamG; Laminin G domain
    cd00054
    Location:663696
    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:28184
    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:15671606
    Syndecan; Syndecan domain
    pfam02210
    Location:9061034
    Laminin_G_2; Laminin G domain
  10. NM_138734.3NP_620063.1  neurexin-2-beta isoform beta precursor

    See identical proteins and their annotated locations for NP_620063.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (beta) lacks most 5' exons and has an alternate exon at the 5' end, as compared to variant alpha-1. It encodes isoform beta which has a much shorter and different N-terminus than isoform alpha-1 (PMID: 12036300 and PMID: 11944992).
    Source sequence(s)
    AP001092
    Consensus CDS
    CCDS8078.1
    UniProtKB/Swiss-Prot
    P58401
    Related
    ENSP00000301894.2, ENST00000301894.6
    Conserved Domains (4) summary
    smart00294
    Location:611629
    4.1m; putative band 4.1 homologues' binding motif
    PHA03247
    Location:387586
    PHA03247; large tegument protein UL36; Provisional
    pfam01034
    Location:591626
    Syndecan; Syndecan domain
    pfam02210
    Location:123271
    Laminin_G_2; Laminin G domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    64606174..64723197 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    64599157..64716433 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)