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

Gene ID: 246217, updated on 4-Jan-2025

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, Jan 2025]
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

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Chemical Information
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