U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Ngrn neugrin, neurite outgrowth associated [ Rattus norvegicus (Norway rat) ]

    Gene ID: 499191, updated on 2-Nov-2024

    Summary

    Official Symbol
    Ngrnprovided by RGD
    Official Full Name
    neugrin, neurite outgrowth associatedprovided by RGD
    Primary source
    RGD:1583734
    See related
    EnsemblRapid:ENSRNOG00000013553 AllianceGenome:RGD:1583734
    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
    Also known as
    Neugrin
    Summary
    Predicted to enable rRNA binding activity. Predicted to be involved in mitochondrial ribosome assembly and positive regulation of mitochondrial translation. Predicted to be located in several cellular components, including intercellular bridge; mitotic spindle; and nuclear body. Predicted to be active in nucleus. Orthologous to human NGRN (neugrin, neurite outgrowth associated). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 194.0), Thymus (RPKM 132.2) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Ngrn in Genome Data Viewer
    Location:
    1q31
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (143622494..143628609)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (134213235..134219348)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (142050458..142056336)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene calcium and integrin binding 1 Neighboring gene GDP-D-glucose phosphorylase 1 Neighboring gene tubulin tyrosine ligase like 13 Neighboring gene VPS33B, late endosome and lysosome associated Neighboring gene small nucleolar RNA SNORA48 Neighboring gene protein regulator of cytokinesis 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Markers

    Clone Names

    • MGC124865

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables rRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables rRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mitochondrial ribosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mitochondrial ribosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of mitochondrial translation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of mitochondrial translation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    located_in intercellular bridge ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrial membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrial membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitotic spindle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    neugrin
    Names
    mesenchymal stem cell protein DSC92
    neurite outgrowth-associated protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001033900.2NP_001029072.2  neugrin precursor

      See identical proteins and their annotated locations for NP_001029072.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) encodes the functional protein.
      Source sequence(s)
      AA818112, BC101926, FM062823
      UniProtKB/Swiss-Prot
      Q3T1H2
      UniProtKB/TrEMBL
      A6JC92
      Related
      ENSRNOP00000018107.3, ENSRNOT00000018107.7
      Conserved Domains (1) summary
      pfam06413
      Location:73293
      Neugrin; Neugrin

    RNA

    1. NR_028055.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) retains an intron in the 5' coding region, compared to variant 2. This variant is represented as non-coding because translation would be expected to begin at the 5'-most translation start codon, as used in variant 1, which has a strong Kozak signal. However, translation from this start site renders the transcript a candidate for nonsense-mediated mRNA decay (NMD), so it is not clear which, if any, protein may be expressed from this variant.
      Source sequence(s)
      AA818112, BC101926, CB544437, CB583418

    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_086019.1 Reference GRCr8

      Range
      143622494..143628609
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039087627.2XP_038943555.1  neugrin isoform X1

      Conserved Domains (1) summary
      pfam06413
      Location:7393
      Neugrin
    2. XM_039087630.2XP_038943558.1  neugrin isoform X2

      Conserved Domains (1) summary
      pfam06413
      Location:7393
      Neugrin

    RNA

    1. XR_005490669.2 RNA Sequence

    2. XR_005490672.2 RNA Sequence