Nectin3 nectin cell adhesion molecule 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nectin3provided by MGI
Official Full Name: nectin cell adhesion molecule 3provided by MGI
Primary source: MGI:MGI:1930171
See related: Ensembl:ENSMUSG00000022656 AllianceGenome:MGI:1930171
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: CD113; Pvrl3; 2610301B19Rik; 3000002N23Rik; 4921513D19Rik
Summary: Enables protein homodimerization activity. Involved in establishment of protein localization to plasma membrane; homophilic cell adhesion via plasma membrane adhesion molecules; and regulation of postsynapse assembly. Acts upstream of or within several processes, including camera-type eye morphogenesis; fertilization; and protein localization to cell junction. Located in several cellular components, including adherens junction; apical junction complex; and cell-cell contact zone. Is active in hippocampal mossy fiber to CA3 synapse and postsynaptic density membrane. Is expressed in several structures, including metanephros; nervous system; sensory organ; skeletal musculature; and tooth. Orthologous to human NECTIN3 (nectin cell adhesion molecule 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in testis adult (RPKM 13.1), CNS E11.5 (RPKM 4.7) and 19 other tissues See more
Orthologs: human all
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Genomic context

Location:: 16 B5; 16 30.48 cM

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	16	NC_000082.7 (46208028..46318898, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	16	NC_000082.6 (46387665..46498535, complement)

Chromosome 16 - NC_000082.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Prefrontal Nectin3 Reduction Mediates Adolescent Stress-Induced Deficits of Social Memory, Spatial Working Memory, and Dendritic Structure in Mice.
Title: Prefrontal Nectin3 Reduction Mediates Adolescent Stress-Induced Deficits of Social Memory, Spatial Working Memory, and Dendritic Structure in Mice.
Precise levels of nectin-3 are required for proper synapse formation in postnatal visual cortex.
Title: Precise levels of nectin-3 are required for proper synapse formation in postnatal visual cortex.
Chronic stress impairs male spermatogenesis function and Nectin-3 protein expression in the testis.
Title: Chronic stress impairs male spermatogenesis function and Nectin-3 protein expression in the testis.
Reduced hippocampal nectin-3 expression in newborn animals impairs the dendritic development of principal neurons in the hippocampus.
Title: Postnatal nectin-3 knockdown induces structural abnormalities of hippocampal principal neurons and memory deficits in adult mice.
Nectin-3 expressed in dentate gyrus neurons may modulate adult neurogenesis, dendritic spine plasticity and the cognitive effects of early-life stress.
Title: Nectin-3 modulates the structural plasticity of dentate granule cells and long-term memory.
-afadin-specific C-terminal inserts may be involved in its preference of binding to nectin-3 and raise the possibility that there are proteins other than nectins that more preferentially bind s-afadin than l-afadin.
Title: s-Afadin binds more preferentially to the cell adhesion molecules nectins than l-afadin.
owing to the loss of Nectin-3, hair cells contact each other inappropriately and form abnormal junctions, ultimately resulting in abnormal hair bundle orientation and morphology
Title: Aberrant cochlear hair cell attachments caused by Nectin-3 deficiency result in hair bundle abnormalities.
Results indicate that PLEKHA7 plays a cooperative role with nectin and afadin in the proper formation of Adherens junction (AJ) in epithelial cell.
Title: Binding between the junctional proteins afadin and PLEKHA7 and implication in the formation of adherens junction in epithelial cells.
This study demonstrated that nectin1- and nectin3-mediated interactions between Cajal-Retzius cells cells and migrating neurons are critical for radial migration.
Title: Cajal-Retzius cells instruct neuronal migration by coincidence signaling between secreted and contact-dependent guidance cues.
Cell adhesion molecule nectin-3 is required for the effects of corticotropin releasing hormone receptor (CRHR)1 on cognition and structural remodeling after early-life stress exposure.
Title: Nectin-3 links CRHR1 signaling to stress-induced memory deficits and spine loss.

Submit: New GeneRIF Correction See all GeneRIFs (24)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:494185

RH133661 (e-PCR)
- UniSTS:216944

AU016832 (e-PCR)
- UniSTS:166003

NoName (e-PCR)
- UniSTS:485279

AW538082 (e-PCR)
- UniSTS:180914

RH125725 (e-PCR)
- UniSTS:162484

RH12011 (e-PCR)
- UniSTS:74221

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables cell adhesion mediator activity	IDA Inferred from Direct Assay more info	PubMed
enables cell adhesion molecule binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell adhesion	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cell-cell adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in cochlea morphogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in establishment of protein localization to plasma membrane	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within fertilization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	IBA Inferred from Biological aspect of Ancestor more info
involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	IDA Inferred from Direct Assay more info	PubMed
involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	IMP Inferred from Mutant Phenotype 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
acts_upstream_of_or_within lens morphogenesis in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein localization to cell junction	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein localization to cell junction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of postsynapse assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of postsynapse assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retina morphogenesis in camera-type eye	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 adherens junction	IBA Inferred from Biological aspect of Ancestor more info
located_in adherens junction	IDA Inferred from Direct Assay more info	PubMed
is_active_in apical junction complex	IBA Inferred from Biological aspect of Ancestor more info
located_in apical junction complex	IDA Inferred from Direct Assay more info	PubMed
located_in axon	IEA Inferred from Electronic Annotation more info
located_in axon	ISO Inferred from Sequence Orthology more info
located_in cell-cell contact zone	IDA Inferred from Direct Assay more info	PubMed
located_in cell-cell junction	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	IEA Inferred from Electronic Annotation more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
is_active_in hippocampal mossy fiber to CA3 synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in hippocampal mossy fiber to CA3 synapse	IEP Inferred from Expression Pattern more info	PubMed
is_active_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	IEP Inferred from Expression Pattern more info	PubMed

General protein information

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Preferred Names: nectin-3

Names: poliovirus receptor-related 3; poliovirus receptor-related protein 3

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.

mRNA and Protein(s)

NM_021495.4 → NP_067470.1 nectin-3 isoform alpha

See identical proteins and their annotated locations for NP_067470.1

Status: VALIDATED

Description

Transcript Variant: This variant (alpha) represents the longest transcript and encodes the longest isoform (alpha).

Source sequence(s)

AC113113, AK011949, BQ174425, BU701648, BY713810

Consensus CDS

CCDS28206.1

UniProtKB/Swiss-Prot

Q059N7, Q9D006, Q9JLB7, Q9JLB8, Q9JLB9

Related

ENSMUSP00000023334.9, ENSMUST00000023334.15

Conserved Domains (5) summary

cd05887
Location:72 → 167

Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins

cd12087
Location:402 → 432

TM_EGFR-like; Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases

smart00410
Location:64 → 166

IG_like; Immunoglobulin like

pfam13927
Location:287 → 342

Ig_3; Immunoglobulin domain

cl11960
Location:170 → 265

Ig; Immunoglobulin domain
NM_021496.3 → NP_067471.1 nectin-3 isoform beta

See identical proteins and their annotated locations for NP_067471.1

Status: VALIDATED

Description

Transcript Variant: This variant (beta) differs in the 3' UTR and coding sequence compared to variant alpha. The resulting isoform (beta) is shorter and has a distinct C-terminus compared to isoform alpha.

Source sequence(s)

AC113113, AK013863, BY713810, CJ102084

Consensus CDS

CCDS28204.1

UniProtKB/Swiss-Prot

Q9JLB9

Related

ENSMUSP00000023335.7, ENSMUST00000023335.13

Conserved Domains (4) summary

cd05887
Location:72 → 167

Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins

smart00410
Location:64 → 166

IG_like; Immunoglobulin like

pfam13927
Location:287 → 342

Ig_3; Immunoglobulin domain

cl11960
Location:170 → 265

Ig; Immunoglobulin domain
NM_021497.2 → NP_067472.1 nectin-3 isoform gamma

See identical proteins and their annotated locations for NP_067472.1

Status: VALIDATED

Description

Transcript Variant: This variant (gamma) differs in the 3' UTR and coding sequence compared to variant alpha. The resulting isoform (gamma) is shorter and has a distinct C-terminus compared to isoform alpha.

Source sequence(s)

AF195835, BY713810

Consensus CDS

CCDS28205.1

UniProtKB/Swiss-Prot

Q9JLB9

Related

ENSMUSP00000093757.3, ENSMUST00000096052.9

Conserved Domains (4) summary

cd05887
Location:72 → 167

Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins

smart00410
Location:64 → 166

IG_like; Immunoglobulin like

pfam13927
Location:287 → 342

Ig_3; Immunoglobulin domain

cl11960
Location:170 → 265

Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000082.7 Reference GRCm39 C57BL/6J

Range

46208028..46318898 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006522434.5 → XP_006522497.1 nectin-3 isoform X1

Conserved Domains (3) summary

cd05887
Location:72 → 167

Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins

smart00409
Location:287 → 348

IG; Immunoglobulin

cl11960
Location:170 → 265

Ig; Immunoglobulin domain
XM_030249225.1 → XP_030105085.1 nectin-3 isoform X3

Conserved Domains (3) summary

cd12087
Location:190 → 220

TM_EGFR-like; Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases

cd00096
Location:1 → 8

Ig; Ig strand D [structural motif]

cl11960
Location:1 → 53

Ig; Immunoglobulin domain
XM_030249224.2 → XP_030105084.1 nectin-3 isoform X3

Conserved Domains (3) summary

cd12087
Location:190 → 220

TM_EGFR-like; Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases

cd00096
Location:1 → 8

Ig; Ig strand D [structural motif]

cl11960
Location:1 → 53

Ig; Immunoglobulin domain
XM_036160078.1 → XP_036015971.1 nectin-3 isoform X2

Conserved Domains (4) summary

cd00096
Location:269 → 275

Ig; Ig strand A [structural motif]

cd05887
Location:58 → 167

IgV_1_Nectin-3_like; First immunoglobulin variable (IgV) domain of nectin-3 (also known as poliovirus receptor related protein 3), and similar domains

cd07704
Location:170 → 265

IgC1_2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 and nectin-4 (poliovirus receptor related protein 4), and similar domains; member of the C1-set of Ig superfamily (IgSF) domains

cl11960
Location:269 → 355

Ig; Immunoglobulin domain