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    Nckipsd NCK interacting protein with SH3 domain [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301009, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Nckipsdprovided by RGD
    Official Full Name
    NCK interacting protein with SH3 domainprovided by RGD
    Primary source
    RGD:1311323
    See related
    EnsemblRapid:ENSRNOG00000031816 AllianceGenome:RGD:1311323
    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
    Summary
    Predicted to enable Arp2/3 complex binding activity. Involved in regulation of postsynapse assembly. Is active in glutamatergic synapse and postsynapse. Orthologous to human NCKIPSD (NCK interacting protein with SH3 domain). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 53.2), Testes (RPKM 52.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nckipsd in Genome Data Viewer
    Location:
    8q32
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (118390121..118401121)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (109511484..109522622)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (117601035..117612302)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene protein kinase cAMP-dependent type II regulatory subunit alpha Neighboring gene uncharacterized LOC134480236 Neighboring gene small nucleolar RNA SNORA28 Neighboring gene inositol hexakisphosphate kinase 2 Neighboring gene cadherin, EGF LAG seven-pass G-type receptor 3 Neighboring gene solute carrier family 26 member 6 Neighboring gene transmembrane protein 89

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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    Related articles in PubMed

    1. Control of growth cone motility and neurite outgrowth by SPIN90. Kim SM, et al. Exp Cell Res, 2011 Oct 1. PMID 21763308
    2. SPIN90 dephosphorylation is required for cofilin-mediated actin depolymerization in NMDA-stimulated hippocampal neurons. Cho IH, et al. Cell Mol Life Sci, 2013 Nov. PMID 23765104, Free PMC Article
    3. SPIN90 phosphorylation modulates spine structure and synaptic function. Cho IH, et al. PLoS One, 2013. PMID 23342115, Free PMC Article
    4. Interaction of SPIN90 with syndapin is implicated in clathrin-mediated endocytic pathway in fibroblasts. Kim SH, et al. Genes Cells, 2006 Oct. PMID 16999739
    5. Interaction of SPIN90 with dynamin I and its participation in synaptic vesicle endocytosis. Kim Y, et al. J Neurosci, 2005 Oct 12. PMID 16221862, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SPIN90 plays critical roles in controlling growth cone dynamics and neurite outgrowth during neuronal development.
      Title: Control of growth cone motility and neurite outgrowth by SPIN90.
    2. SPIN90-PRD, a syndapin-binding domain, significantly inhibited endocytosis, and the inhibition was reversed by co-expression of syndapin.
      Title: Interaction of SPIN90 with syndapin is implicated in clathrin-mediated endocytic pathway in fibroblasts.
    3. 90 kDa SH3 protein interacting with Nck (SPIN90) can modulate the interactions of dynamin I with other endocytic proteins that cooperate in the coated vesicle formation, thus regulating synaptic vesicle endocytosis.
      Title: Interaction of SPIN90 with dynamin I and its participation in synaptic vesicle endocytosis.
    4. SPIN90/WISH is a downstream effector of PSD-95-dependent synaptic remodeling.
      Title: SPIN90/WISH interacts with PSD-95 and regulates dendritic spinogenesis via an N-WASP-independent mechanism.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables Arp2/3 complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of neuron projection development ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 
    Component Evidence Code Pubs
    part_of COP9 signalosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    is_active_in postsynapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    NCK-interacting protein with SH3 domain

    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_001393927.1 → NP_001380856.1  NCK-interacting protein with SH3 domain

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      D3ZWX4
      Related
      ENSRNOP00000049566.6, ENSRNOT00000047482.7
      Conserved Domains (3) summary
      cd11849
      Location:1 → 53
      SH3_SPIN90; Src homology 3 domain of SH3 protein interacting with Nck, 90 kDa (SPIN90)
      PRK14965
      Location:223 → 312
      PRK14965; DNA polymerase III subunits gamma and tau; Provisional
      pfam09431
      Location:562 → 675
      DUF2013; Protein of unknown function (DUF2013)

    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

    1. NC_086026.1 Reference GRCr8

      Range
      118390121..118401121
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063265254.1 → XP_063121324.1  NCK-interacting protein with SH3 domain isoform X1

      Related
      ENSRNOP00000107443.1, ENSRNOT00000154226.1

    2. XM_008766509.4 → XP_008764731.1  NCK-interacting protein with SH3 domain isoform X2

      See identical proteins and their annotated locations for XP_008764731.1

      UniProtKB/TrEMBL
      D3ZWX4
      Conserved Domains (1) summary
      pfam09431
      Location:500 → 617
      DUF2013; Protein of unknown function (DUF2013)

    3. XM_006243754.5 → XP_006243816.1  NCK-interacting protein with SH3 domain isoform X2

      See identical proteins and their annotated locations for XP_006243816.1

      UniProtKB/TrEMBL
      D3ZWX4
      Conserved Domains (1) summary
      pfam09431
      Location:500 → 617
      DUF2013; Protein of unknown function (DUF2013)

    4. XM_039081237.2 → XP_038937165.1  NCK-interacting protein with SH3 domain isoform X3

      Conserved Domains (2) summary
      cd11849
      Location:1 → 53
      SH3_SPIN90; Src homology 3 domain of SH3 protein interacting with Nck, 90 kDa (SPIN90)
      PRK07994
      Location:230 → 312
      PRK07994; DNA polymerase III subunits gamma and tau; Validated

    5. XM_039081238.2 → XP_038937166.1  NCK-interacting protein with SH3 domain isoform X4

      Conserved Domains (1) summary
      pfam09431
      Location:251 → 364
      DUF2013; Protein of unknown function (DUF2013)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001106857.1: Suppressed sequence

      Description
      NM_001106857.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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