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

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; AllianceGenome:HGNC:9707
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: mouse all
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Genomic context

Location:: 19q13.32

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (44846297..44889223)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (47671015..47713944)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (45349554..45392480)

Chromosome 19 - NC_000019.10 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: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PVRL2 Suppresses Antitumor Immunity through PVRIG- and TIGIT-independent Pathways.
Title: PVRL2 Suppresses Antitumor Immunity through PVRIG- and TIGIT-independent Pathways.
CD112 Supports Lymphatic Migration of Human Dermal Dendritic Cells.
Title: CD112 Supports Lymphatic Migration of Human Dermal Dendritic Cells.
The SNP rs6859 in NECTIN2 gene is associated with underlying heterogeneous trajectories of cognitive changes in older adults.
Title: The SNP rs6859 in NECTIN2 gene is associated with underlying heterogeneous trajectories of cognitive changes in older adults.
Single-cell RNA sequencing highlights the role of PVR/PVRL2 in the immunosuppressive tumour microenvironment in hepatocellular carcinoma.
Title: Single-cell RNA sequencing highlights the role of PVR/PVRL2 in the immunosuppressive tumour microenvironment in hepatocellular carcinoma.
Relative Expression of BATF and CD112 in PBMC of Patients with Chronic Lymphocytic Leukemia.
Title: Relative Expression of BATF and CD112 in PBMC of Patients with Chronic Lymphocytic Leukemia.
Nectin2 influences cell apoptosis by regulating ANXA2 expression in neuroblastoma.
Title: Nectin2 influences cell apoptosis by regulating ANXA2 expression in neuroblastoma.
Metabolic Overlap between Alzheimer's Disease and Metabolic Syndrome Identifies the PVRL2 Gene as a New Modulator of Diabetic Dyslipidemia.
Title: Metabolic Overlap between Alzheimer's Disease and Metabolic Syndrome Identifies the PVRL2 Gene as a New Modulator of Diabetic Dyslipidemia.
Association and interaction of TOMM40 and PVRL2 with plasma amyloid-beta and Alzheimer's disease among Chinese older adults: a population-based study.
Title: Association and interaction of TOMM40 and PVRL2 with plasma amyloid-β and Alzheimer's disease among Chinese older adults: a population-based study.
Nectin-2 in general and in the brain.
Title: Nectin-2 in general and in the brain.
Nectin-2 Acts as a Viral Entry Mediated Molecule That Binds to Human Herpesvirus 6B Glycoprotein B.
Title: Nectin-2 Acts as a Viral Entry Mediated Molecule That Binds to Human Herpesvirus 6B Glycoprotein B.

Submit: New GeneRIF Correction See all GeneRIFs (45)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D19S1088 (e-PCR)
- UniSTS:2870

A006Y34 (e-PCR)
- UniSTS:14944

RH41685 (e-PCR)
- UniSTS:85405

RH94344 (e-PCR)
- UniSTS:92329

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables cell adhesion molecule binding	IBA Inferred from Biological aspect of Ancestor more info
enables cell adhesion molecule binding	IPI Inferred from Physical Interaction more info	PubMed
enables coreceptor activity	TAS Traceable Author Statement more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables virus receptor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in acrosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in adhesion of symbiont to host	IDA Inferred from Direct Assay more info	PubMed
involved_in cilium organization	IEA Inferred from Electronic Annotation more info
involved_in coreceptor-mediated virion attachment to host cell	IBA Inferred from Biological aspect of Ancestor more info
involved_in coreceptor-mediated virion attachment to host cell	IDA Inferred from Direct Assay more info	PubMed
involved_in cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in establishment of localization in cell	IEA Inferred from Electronic Annotation more info
involved_in establishment of mitochondrion localization	IEA Inferred from Electronic Annotation more info
involved_in fertilization	IEA Inferred from Electronic Annotation more info
involved_in fusion of virus membrane with host plasma membrane	IDA Inferred from Direct Assay more info	PubMed
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	IBA Inferred from Biological aspect of Ancestor more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of T cell receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of T cell receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of immunoglobulin mediated immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of immunoglobulin mediated immune response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of mast cell activation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of mast cell activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of natural killer cell mediated cytotoxicity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of viral entry into host cell	IDA Inferred from Direct Assay more info	PubMed
involved_in sperm mitochondrion organization	IEA Inferred from Electronic Annotation more info
involved_in spermatid development	ISS Inferred from Sequence or Structural Similarity more info
involved_in spermatid nucleus differentiation	IEA Inferred from Electronic Annotation more info
involved_in susceptibility to T cell mediated cytotoxicity	IDA Inferred from Direct Assay more info	PubMed
involved_in susceptibility to natural killer cell mediated cytotoxicity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in symbiont entry into host cell	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in apical junction complex	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cell-cell contact zone	IEA Inferred from Electronic Annotation more info
located_in cell-cell junction	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular exosome	HDA more info	PubMed
located_in focal adhesion	HDA more info	PubMed
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	TAS Traceable Author Statement more info
located_in zonula adherens	ISS Inferred from Sequence or Structural Similarity more info	PubMed

General protein information

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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)

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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.

Genomic

NG_029149.1 RefSeqGene

Range

5162..48088

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001042724.2 → NP_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

A8K5L5, O75455, Q6IBI6, Q92692, Q96J29

Related

ENSP00000252483.4, ENST00000252483.10

Conserved Domains (3) summary

smart00410
Location:40 → 158

IG_like; Immunoglobulin like

pfam13927
Location:280 → 333

Ig_3; Immunoglobulin domain

cl11960
Location:162 → 257

Ig; Immunoglobulin domain
NM_002856.3 → NP_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/TrEMBL

Q9UEI6

Related

ENSP00000252485.3, ENST00000252485.8

Conserved Domains (2) summary

pfam13927
Location:260 → 333

Ig_3; Immunoglobulin domain

cl11960
Location:162 → 257

Ig; Immunoglobulin domain