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NECTIN2 nectin cell adhesion molecule 2 [ Homo sapiens (human) ]

Gene ID: 5819, updated on 4-May-2020

Summary

Official Symbol
NECTIN2provided by HGNC
Official Full Name
nectin cell adhesion molecule 2provided by HGNC
Primary source
HGNC:HGNC:9707
See related
Ensembl:ENSG00000130202 MIM:600798
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
Also known as
HVEB; PRR2; CD112; PVRL2; PVRR2
Summary
This gene encodes a single-pass type I membrane glycoprotein with two Ig-like C2-type domains and an Ig-like V-type domain. This protein is one of the plasma membrane components of adherens junctions. It also serves as an entry for certain mutant strains of herpes simplex virus and pseudorabies virus, and it is involved in cell to cell spreading of these viruses. Variations in this gene have been associated with differences in the severity of multiple sclerosis. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in placenta (RPKM 24.8), testis (RPKM 23.6) and 25 other tissues See more
Orthologs

Genomic context

See NECTIN2 in Genome Data Viewer
Location:
19q13.32
Exon count:
10
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (44846297..44889223)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (45349393..45392485)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene Cbl proto-oncogene C Neighboring gene basal cell adhesion molecule (Lutheran blood group) Neighboring gene translocase of outer mitochondrial membrane 40 Neighboring gene apolipoprotein E

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

NHGRI GWAS Catalog

Description
A comprehensive genetic association study of Alzheimer disease in African Americans.
NHGRI GWA Catalog
A genome-wide association study for late-onset Alzheimer's disease using DNA pooling.
NHGRI GWA Catalog
APOE and BCHE as modulators of cerebral amyloid deposition: a florbetapir PET genome-wide association study.
NHGRI GWA Catalog
Dementia revealed: novel chromosome 6 locus for late-onset Alzheimer disease provides genetic evidence for folate-pathway abnormalities.
NHGRI GWA Catalog
Gene-environment interactions and obesity traits among postmenopausal African-American and Hispanic women in the Women's Health Initiative SHARe Study.
NHGRI GWA Catalog
Genome-wide association analysis of age-at-onset in Alzheimer's disease.
NHGRI GWA Catalog
Insights into the genetic architecture of early stage age-related macular degeneration: a genome-wide association study meta-analysis.
NHGRI GWA Catalog
Large-scale genome-wide association studies in East Asians identify new genetic loci influencing metabolic traits.
NHGRI GWA Catalog
Overrepresentation of glutamate signaling in Alzheimer's disease: network-based pathway enrichment using meta-analysis of genome-wide association studies.
NHGRI GWA Catalog
SORL1 is genetically associated with late-onset Alzheimer's disease in Japanese, Koreans and Caucasians.
NHGRI GWA Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cell adhesion molecule binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell adhesion molecule binding IPI
Inferred from Physical Interaction
more info
PubMed 
coreceptor activity TAS
Traceable Author Statement
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IEA
Inferred from Electronic Annotation
more info
 
virus receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acrosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acrosome assembly IEA
Inferred from Electronic Annotation
more info
 
adherens junction organization TAS
Traceable Author Statement
more info
 
adhesion of symbiont to host IDA
Inferred from Direct Assay
more info
PubMed 
cell part morphogenesis IEA
Inferred from Electronic Annotation
more info
 
cilium organization IEA
Inferred from Electronic Annotation
more info
 
coreceptor-mediated virion attachment to host cell IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
coreceptor-mediated virion attachment to host cell IDA
Inferred from Direct Assay
more info
PubMed 
cytoskeleton organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoskeleton organization IEA
Inferred from Electronic Annotation
more info
 
establishment of mitochondrion localization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
establishment of mitochondrion localization IEA
Inferred from Electronic Annotation
more info
 
fertilization IEA
Inferred from Electronic Annotation
more info
 
fusion of virus membrane with host plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
fusion of virus membrane with host plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
homophilic cell adhesion via plasma membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
homophilic cell adhesion via plasma membrane adhesion molecules IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of T cell receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of T cell receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of immunoglobulin mediated immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of immunoglobulin mediated immune response IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of mast cell activation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of mast cell activation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of natural killer cell mediated cytotoxicity IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of immune response TAS
Traceable Author Statement
more info
 
regulation of viral entry into host cell IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of viral entry into host cell IDA
Inferred from Direct Assay
more info
PubMed 
sperm mitochondrion organization IEA
Inferred from Electronic Annotation
more info
 
spermatid development ISS
Inferred from Sequence or Structural Similarity
more info
 
spermatid nucleus differentiation IEA
Inferred from Electronic Annotation
more info
 
susceptibility to T cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
susceptibility to T cell mediated cytotoxicity IDA
Inferred from Direct Assay
more info
PubMed 
susceptibility to natural killer cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
susceptibility to natural killer cell mediated cytotoxicity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
apical junction complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
cell-cell contact zone IEA
Inferred from Electronic Annotation
more info
 
cell-cell junction IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
focal adhesion HDA PubMed 
integral component of membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
zonula adherens ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 

General protein information

Preferred Names
nectin-2
Names
herpesvirus entry protein B
poliovirus receptor-like 2
poliovirus receptor-related 2 (herpesvirus entry mediator B)

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.

Genomic

  1. NG_029149.1 RefSeqGene

    Range
    5162..48088
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001042724.2NP_001036189.1  nectin-2 isoform delta precursor

    See identical proteins and their annotated locations for NP_001036189.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (delta) represents the longer transcript and encodes the longer isoform (delta).
    Source sequence(s)
    AJ708439, CN359643, CN410857, X80038
    Consensus CDS
    CCDS42576.1
    UniProtKB/Swiss-Prot
    Q92692
    Related
    ENSP00000252483.4, ENST00000252483.10
    Conserved Domains (3) summary
    smart00410
    Location:40158
    IG_like; Immunoglobulin like
    pfam13927
    Location:280333
    Ig_3; Immunoglobulin domain
    cl11960
    Location:162257
    Ig; Immunoglobulin domain
  2. NM_002856.3NP_002847.1  nectin-2 isoform alpha precursor

    See identical proteins and their annotated locations for NP_002847.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (alpha) has multiple differences in the coding region, compared to variant delta, one of which results in an early stop codon. The resulting protein (isoform alpha) has a distinct C-terminus and is shorter than isoform delta.
    Source sequence(s)
    AF058448, DA198252
    Consensus CDS
    CCDS12645.1
    UniProtKB/Swiss-Prot
    Q92692
    Related
    ENSP00000252485.3, ENST00000252485.8
    Conserved Domains (2) summary
    pfam13927
    Location:260333
    Ig_3; Immunoglobulin domain
    cl11960
    Location:162257
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    44846297..44889223
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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