Nectin3 nectin cell adhesion molecule 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nectin3provided by RGD
Official Full Name: nectin cell adhesion molecule 3provided by RGD
Primary source: RGD:1309516
See related: EnsemblRapid:ENSRNOG00000002176 AllianceGenome:RGD:1309516
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Pvrl3
Summary: Predicted to enable cell adhesion molecule binding activity and protein homodimerization activity. Predicted to be involved in several processes, including heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules; homophilic cell adhesion via plasma membrane adhesion molecules; and regulation of postsynapse assembly. Predicted to act upstream of or within several processes, including camera-type eye morphogenesis; fertilization; and protein localization to cell junction. Located in axon and dendrite. Orthologous to human NECTIN3 (nectin cell adhesion molecule 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 299.8), Testes (RPKM 275.2) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q21

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (67825296..67931999)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (54362712..54469351)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (57897879..57995193, complement)

Chromosome 11 - NC_086029.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

spermatid junction molecule that is internalized by adjacent Sertoli cells
Title: High Resolution Localization of Rab5, EEA1, and Nectin-3 to Tubulobulbar Complexes in the Rat Testis.
Nectin-3 is increased in the cell junctions of the uterine epithelium at implantation. Results suggest that at the time of implantation, nectin-3 may contribute to the formation of the tight junction in a protein complex independent from occludin and l-afadin.
Title: Nectin-3 Is Increased in the Cell Junctions of the Uterine Epithelium at Implantation.
PDZD11 forms a complex with nectin-1 and nectin-3, and its PDZ domain interacts directly with the PDZ-binding motif of nectin-1.
Title: PLEKHA7 Recruits PDZD11 to Adherens Junctions to Stabilize Nectins.
MMP-9 has a role in stress-induced downregulation of nectin-3 in hippocampal CA1 and associated behavioral alterations
Title: Role for MMP-9 in stress-induced downregulation of nectin-3 in hippocampal CA1 and associated behavioural alterations.
critical role of sFRP1 in regulating spermiation via its effects on the FAK signaling and retention of nectin-3 adhesion complex at the apical ectoplasmic specialization
Title: Secreted Frizzled-related protein 1 (sFRP1) regulates spermatid adhesion in the testis via dephosphorylation of focal adhesion kinase and the nectin-3 adhesion protein complex.

Submit: New GeneRIF Correction

General gene information

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Markers

BE111876 (e-PCR)
- UniSTS:245800

RH133661 (e-PCR)
- UniSTS:216944

BF386882 (e-PCR)
- UniSTS:243869

RH137470 (e-PCR)
- UniSTS:219558

PVRL3__5617 (e-PCR)
- UniSTS:463838

RH12011 (e-PCR)
- UniSTS:74221

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cell adhesion mediator activity	IEA Inferred from Electronic Annotation more info
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 homodimerization activity	ISO Inferred from Sequence Orthology more info

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

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_001105883.2 → NP_001099353.1 nectin-3 isoform 2

See identical proteins and their annotated locations for NP_001099353.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000011

UniProtKB/TrEMBL

A0A8I6APZ5, A6IQW6, A6IQW7

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_001399228.1 → NP_001386157.1 nectin-3 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000011

UniProtKB/TrEMBL

A0A8I5ZU75, A6IQW8

Related

ENSRNOP00000002957.7, ENSRNOT00000002957.7

Conserved Domains (5) summary

cd12087
Location:403 → 432

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

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

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086029.1 Reference GRCr8

Range

67825296..67931999

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063270401.1 → XP_063126471.1 nectin-3 isoform X6
XM_063270400.1 → XP_063126470.1 nectin-3 isoform X5
XM_063270399.1 → XP_063126469.1 nectin-3 isoform X4
XM_063270397.1 → XP_063126467.1 nectin-3 isoform X2
XM_063270398.1 → XP_063126468.1 nectin-3 isoform X3
XM_039088189.2 → XP_038944117.1 nectin-3 isoform X1

Conserved Domains (5) summary

cd12087
Location:438 → 467

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

cd00096
Location:304 → 310

Ig; Ig strand A [structural motif]

cd05887
Location:93 → 202

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:205 → 300

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:304 → 390

Ig; Immunoglobulin domain
XM_063270404.1 → XP_063126474.1 nectin-3 isoform X9

UniProtKB/TrEMBL

A0A8I6APZ5, A6IQW7
XM_063270402.1 → XP_063126472.1 nectin-3 isoform X7

UniProtKB/TrEMBL

D4A5C0
XM_063270405.1 → XP_063126475.1 nectin-3 isoform X10
XM_063270403.1 → XP_063126473.1 nectin-3 isoform X8