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

Gene ID: 499191, updated on 27-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
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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
  • 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 matrix 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)

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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_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