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

Gene ID: 58998, updated on 5-Jan-2022

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
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; AA407785; AU016832; AW538082; 2610301B19Rik; 3000002N23Rik; 4921513D19Rik
Summary
Enables protein homodimerization activity. Involved in establishment of protein localization to plasma membrane and homophilic cell adhesion via plasma membrane adhesion molecules. 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 integral component of postsynaptic density membrane. Is active in hippocampal mossy fiber to CA3 synapse. Is expressed in several structures, including nervous system; sensory organ; skeletal musculature; tooth; and vibrissa. Orthologous to human NECTIN3 (nectin cell adhesion molecule 3). [provided by Alliance of Genome Resources, Nov 2021]
Expression
Broad expression in testis adult (RPKM 13.1), CNS E11.5 (RPKM 4.7) and 19 other tissues See more
Orthologs
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Genomic context

See Nectin3 in Genome Data Viewer
Location:
16; 16 B5
Exon count:
15
Annotation release Status Assembly Chr Location
109 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)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 16 NC_000082.5 (46395118..46497080, complement)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene adenosylhomocysteinase like Neighboring gene predicted gene, 26297 Neighboring gene predicted gene, 17900 Neighboring gene SCO2 cytochrome c oxidase assembly protein pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
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 IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
PubMed 
located_in apical junction complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in axon ISO
Inferred from Sequence Orthology
more info
 
located_in cell junction IEA
Inferred from Electronic Annotation
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 ISO
Inferred from Sequence Orthology
more info
 
is_active_in hippocampal mossy fiber to CA3 synapse IDA
Inferred from Direct Assay
more info
PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in integral component of postsynaptic density membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in postsynaptic membrane IEA
Inferred from Electronic Annotation
more info
 
located_in synapse ISO
Inferred from Sequence Orthology
more info
 

General protein information

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)

  1. NM_021495.4NP_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
    Q9JLB9
    Related
    ENSMUSP00000023334.9, ENSMUST00000023334.15
    Conserved Domains (5) summary
    cd05887
    Location:72167
    Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins
    cd12087
    Location:402432
    TM_EGFR-like; Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases
    smart00410
    Location:64166
    IG_like; Immunoglobulin like
    pfam13927
    Location:287342
    Ig_3; Immunoglobulin domain
    cl11960
    Location:170265
    Ig; Immunoglobulin domain
  2. NM_021496.3NP_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:72167
    Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins
    smart00410
    Location:64166
    IG_like; Immunoglobulin like
    pfam13927
    Location:287342
    Ig_3; Immunoglobulin domain
    cl11960
    Location:170265
    Ig; Immunoglobulin domain
  3. NM_021497.2NP_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:72167
    Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins
    smart00410
    Location:64166
    IG_like; Immunoglobulin like
    pfam13927
    Location:287342
    Ig_3; Immunoglobulin domain
    cl11960
    Location:170265
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000082.7 Reference GRCm39 C57BL/6J

    Range
    46208028..46318898 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (3) summary
    cd05887
    Location:72167
    Ig1_Nectin-3_like; First immunoglobulin (Ig) domain of nectin-3 (also known as poliovirus receptor related protein 3) and similar proteins
    smart00409
    Location:287348
    IG; Immunoglobulin
    cl11960
    Location:170265
    Ig; Immunoglobulin domain
  2. XM_030249225.1XP_030105085.1  nectin-3 isoform X3

    Conserved Domains (3) summary
    cd12087
    Location:190220
    TM_EGFR-like; Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases
    cd00096
    Location:18
    Ig; Ig strand D [structural motif]
    cl11960
    Location:153
    Ig; Immunoglobulin domain
  3. XM_030249224.2XP_030105084.1  nectin-3 isoform X3

    Conserved Domains (3) summary
    cd12087
    Location:190220
    TM_EGFR-like; Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases
    cd00096
    Location:18
    Ig; Ig strand D [structural motif]
    cl11960
    Location:153
    Ig; Immunoglobulin domain
  4. XM_036160078.1XP_036015971.1  nectin-3 isoform X2

    Conserved Domains (4) summary
    cd00096
    Location:269275
    Ig; Ig strand A [structural motif]
    cd05887
    Location:58167
    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:170265
    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:269355
    Ig; Immunoglobulin domain

RNA

  1. XR_001781847.2 RNA Sequence

  2. XR_001781846.3 RNA Sequence

  3. XR_001781848.3 RNA Sequence

  4. XR_003951810.2 RNA Sequence

  5. XR_003951811.1 RNA Sequence

  6. XR_384583.5 RNA Sequence

  7. XR_003951809.2 RNA Sequence

  8. XR_003951812.1 RNA Sequence

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