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    Ngef neuronal guanine nucleotide exchange factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 246217, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ngefprovided by RGD
    Official Full Name
    neuronal guanine nucleotide exchange factorprovided by RGD
    Primary source
    RGD:1309055
    See related
    EnsemblRapid:ENSRNOG00000016653 AllianceGenome:RGD:1309055
    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
    Also known as
    Besh3
    Summary
    Predicted to enable ephrin receptor binding activity and guanyl-nucleotide exchange factor activity. Predicted to be involved in ephrin receptor signaling pathway; regulation of actin cytoskeleton organization; and regulation of synapse organization. Is active in postsynapse. Orthologous to human NGEF (neuronal guanine nucleotide exchange factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 231.3), Uterus (RPKM 56.0) and 3 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ngef in Genome Data Viewer
    Location:
    9q35
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (95594823..95692381, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (88146956..88244454, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (94569286..94601852, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene GRB10 interacting GYF protein 2 Neighboring gene uncharacterized LOC134480606 Neighboring gene secondary ossification center associated regulator of chondrocyte maturation Neighboring gene neuraminidase 2 Neighboring gene uncharacterized LOC120094737 Neighboring gene inositol polyphosphate-5-phosphatase D Neighboring gene uncharacterized LOC134480608

    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. Expression and activation of ephexin is altered after spinal cord injury. Rosas OR, et al. Dev Neurobiol, 2011 Jul. PMID 20949525, Free PMC Article
    2. EphA receptors regulate growth cone dynamics through the novel guanine nucleotide exchange factor ephexin. Shamah SM, et al. Cell, 2001 Apr 20. PMID 11336673
    3. Characterization of Ngef, a novel member of the Dbl family of genes expressed predominantly in the caudate nucleus. Rodrigues NR, et al. Genomics, 2000 Apr 1. PMID 10777665
    4. Eph-dependent tyrosine phosphorylation of ephexin1 modulates growth cone collapse. Sahin M, et al. Neuron, 2005 Apr 21. PMID 15848799
    5. Cdk5 regulates EphA4-mediated dendritic spine retraction through an ephexin1-dependent mechanism. Fu WY, et al. Nat Neurosci, 2007 Jan. PMID 17143272

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ephrin receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables guanyl-nucleotide exchange factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ephrin receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ephrin receptor signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of dendritic spine morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of dendritic spine morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in nervous system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of actin cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of synapse pruning ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in growth cone IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in postsynapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    ephexin-1
    Names
    brain-enriched SH3-domain protein Besh3
    eph-interacting exchange protein

    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_001136241.1 → NP_001129713.1  ephexin-1

      See identical proteins and their annotated locations for NP_001129713.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A8I6ADY5, A6JWN4, G3V856
      Related
      ENSRNOP00000022485.4, ENSRNOT00000022485.6
      Conserved Domains (4) summary
      cd11939
      Location:522 → 576
      SH3_ephexin1; Src homology 3 domain of the Rho guanine nucleotide exchange factor, ephexin-1 (also called NGEF or ARHGEF27)
      cd01221
      Location:383 → 509
      PH_ephexin; Ephexin Pleckstrin homology (PH) domain
      pfam00169
      Location:396 → 502
      PH; PH domain
      pfam00621
      Location:183 → 362
      RhoGEF; RhoGEF 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

    1. NC_086027.1 Reference GRCr8

      Range
      95594823..95692381 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039083015.2 → XP_038938943.1  ephexin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q5BKC9
      UniProtKB/TrEMBL
      A0A8I5ZSE2
      Related
      ENSRNOP00000081178.1, ENSRNOT00000097143.2
      Conserved Domains (3) summary
      cd11939
      Location:606 → 660
      SH3_ephexin1; Src homology 3 domain of the Rho guanine nucleotide exchange factor, ephexin-1 (also called NGEF or ARHGEF27)
      cd01221
      Location:467 → 593
      PH_ephexin; Ephexin Pleckstrin homology (PH) domain
      pfam00621
      Location:267 → 445
      RhoGEF; RhoGEF domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_139334.1: Suppressed sequence

      Description
      NM_139334.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5BKC9.2 GenPept UniProtKB/Swiss-Prot:Q5BKC9

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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