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    Nedd9 neural precursor cell expressed, developmentally down-regulated 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291044, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Nedd9provided by RGD
    Official Full Name
    neural precursor cell expressed, developmentally down-regulated 9provided by RGD
    Primary source
    RGD:1306276
    See related
    EnsemblRapid:ENSRNOG00000014548 AllianceGenome:RGD:1306276
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable protein tyrosine kinase binding activity. Predicted to be involved in several processes, including positive regulation of dendritic spine maintenance; positive regulation of immunological synapse formation; and regulation of cell migration. Predicted to act upstream of or within activation of GTPase activity. Predicted to be located in several cellular components, including basolateral plasma membrane; focal adhesion; and microtubule cytoskeleton. Predicted to be active in cytoplasm. Predicted to colocalize with plasma membrane. Orthologous to human NEDD9 (neural precursor cell expressed, developmentally down-regulated 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 451.0), Spleen (RPKM 243.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nedd9 in Genome Data Viewer
    Location:
    17p12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (23495531..23673780)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (23289793..23468026)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (22984792..23179701)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene transmembrane protein 170B Neighboring gene uncharacterized LOC134482837 Neighboring gene uncharacterized LOC134482836 Neighboring gene uncharacterized LOC102548345 Neighboring gene small integral membrane protein 13 Neighboring gene small integral membrane protein 13 like Neighboring gene microRNA 3566

    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
    • 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. Retinoic acid regulates Schwann cell migration via NEDD9 induction by transcriptional and post-translational mechanisms. Latasa MJ, et al. Biochim Biophys Acta, 2016 Jul. PMID 27085739
    2. Nedd9 protein, a Cas-L homologue, is upregulated after transient global ischemia in rats: possible involvement of Nedd9 in the differentiation of neurons after ischemia. Sasaki T, et al. Stroke, 2005 Nov. PMID 16210561
    3. Crk-associated substrate (Cas) family member, NEDD9, is regulated in human neuroblastoma cells and in the embryonic hindbrain by all-trans retinoic acid. Merrill RA, et al. Dev Dyn, 2004 Nov. PMID 15376324
    4. A novel Cas family member, HEPL, regulates FAK and cell spreading. Singh MK, et al. Mol Biol Cell, 2008 Apr. PMID 18256281, Free PMC Article
    5. CRK proteins selectively regulate T cell migration into inflamed tissues. Huang Y, et al. J Clin Invest, 2015 Mar 2. PMID 25621495, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Retinoic acid regulates Schwann cell migration by inducing NEDD9 levels by both transcriptional and post-translational mechanisms.
      Title: Retinoic acid regulates Schwann cell migration via NEDD9 induction by transcriptional and post-translational mechanisms.
    2. Nedd9 has a role in the differentiation of neurons after ischemia
      Title: Nedd9 protein, a Cas-L homologue, is upregulated after transient global ischemia in rats: possible involvement of Nedd9 in the differentiation of neurons after ischemia.
    3. Nedd9_predicted is regulated in the embryonic hindbrain by all-trans retinoic acid.
      Title: Crk-associated substrate (Cas) family member, NEDD9, is regulated in human neuroblastoma cells and in the embryonic hindbrain by all-trans retinoic acid.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protein tyrosine kinase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within activation of GTPase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell surface receptor protein tyrosine kinase signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cilium disassembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in learning or memory ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lymphocyte migration into lymphoid organs ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of dendritic spine maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of immunological synapse formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of lymphocyte chemotaxis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of osteoclast differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein tyrosine kinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of substrate adhesion-dependent cell spreading ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of actin cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in basolateral plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ciliary basal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in focal adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in immunological synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitotic spindle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    colocalizes_with plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in spindle pole ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    enhancer of filamentation 1
    Names
    neural precursor cell expressed, developmentally down-regulated gene 9

    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_001011922.3 → NP_001011922.1  enhancer of filamentation 1

      See identical proteins and their annotated locations for NP_001011922.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/TrEMBL
      A6J767, F7F3Z5, Q5U2Y4
      Related
      ENSRNOP00000112768.1, ENSRNOT00000174126.1
      Conserved Domains (3) summary
      cd12002
      Location:7 → 63
      SH3_NEDD9; Src homology 3 domain of CAS (Crk-Associated Substrate) scaffolding protein family member, Neural precursor cell Expressed, Developmentally Down-regulated 9
      pfam12026
      Location:620 → 827
      DUF3513; Domain of unknown function (DUF3513)
      cl07433
      Location:400 → 561
      Serine_rich_CAS; Serine rich Four helix bundle domain of CAS (Crk-Associated Substrate) scaffolding proteins; a protein interaction module

    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_086035.1 Reference GRCr8

      Range
      23495531..23673780
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006253786.5 → XP_006253848.1  enhancer of filamentation 1 isoform X1

      See identical proteins and their annotated locations for XP_006253848.1

      UniProtKB/TrEMBL
      A0A0G2JZL7, A6J766
      Related
      ENSRNOP00000071096.2, ENSRNOT00000078310.3
      Conserved Domains (3) summary
      cd12002
      Location:7 → 63
      SH3_NEDD9; Src homology 3 domain of CAS (Crk-Associated Substrate) scaffolding protein family member, Neural precursor cell Expressed, Developmentally Down-regulated 9
      pfam12026
      Location:620 → 827
      DUF3513; Domain of unknown function (DUF3513)
      cl07433
      Location:400 → 561
      Serine_rich_CAS; Serine rich Four helix bundle domain of CAS (Crk-Associated Substrate) scaffolding proteins; a protein interaction module

    2. XM_039095477.2 → XP_038951405.1  enhancer of filamentation 1 isoform X2

      Related
      ENSRNOP00000060831.2, ENSRNOT00000067374.4
      Conserved Domains (3) summary
      cd12002
      Location:1 → 57
      SH3_NEDD9; Src homology 3 domain of CAS (Crk-Associated Substrate) scaffolding protein family member, Neural precursor cell Expressed, Developmentally Down-regulated 9
      pfam12026
      Location:614 → 821
      DUF3513; Domain of unknown function (DUF3513)
      cl07433
      Location:394 → 555
      Serine_rich_CAS; Serine rich Four helix bundle domain of CAS (Crk-Associated Substrate) scaffolding proteins; a protein interaction module
    Nucleotide Protein Strain
    Heading Accession and Version

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