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Gar1 GAR1 ribonucleoprotein [ Rattus norvegicus (Norway rat) ]

Gene ID: 499709, updated on 2-Nov-2024

Summary

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Official Symbol
Gar1provided by RGD
Official Full Name
GAR1 ribonucleoproteinprovided by RGD
Primary source
RGD:1563995
See related
AllianceGenome:RGD:1563995
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
Nola1
Summary
Predicted to enable box H/ACA snoRNA binding activity and telomerase RNA binding activity. Involved in snoRNA guided rRNA pseudouridine synthesis. Part of box H/ACA snoRNP complex. Orthologous to human GAR1 (GAR1 ribonucleoprotein). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 13.6), Thymus (RPKM 13.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Gar1 in Genome Data Viewer
Location:
2q43
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (221049471..221056749, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (218375231..218382509, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (235250453..235258464, complement)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene leucine-rich repeat, Ig-like and transmembrane domains 3 Neighboring gene retinal pigment epithelium derived rhodopsin homolog Neighboring gene uncharacterized LOC134485966 Neighboring gene complement factor I Neighboring gene uncharacterized LOC120100942

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 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. Immunopurified small nucleolar ribonucleoprotein particles pseudouridylate rRNA independently of their association with phosphorylated Nopp140. Wang C, et al. Mol Cell Biol, 2002 Dec. PMID 12446766, Free PMC Article
  2. The box C/D and H/ACA snoRNPs: key players in the modification, processing and the dynamic folding of ribosomal RNA. Watkins NJ, et al. Wiley Interdiscip Rev RNA, 2012 May-Jun. PMID 22065625
  3. In vitro assembly of human H/ACA small nucleolar RNPs reveals unique features of U17 and telomerase RNAs. Dragon F, et al. Mol Cell Biol, 2000 May. PMID 10757788, Free PMC Article
  4. Cryo-EM structure of substrate-bound human telomerase holoenzyme. Nguyen THD, et al. Nature, 2018 May. PMID 29695869, Free PMC Article
  5. Specificity and stoichiometry of subunit interactions in the human telomerase holoenzyme assembled in vivo. Egan ED, et al. Mol Cell Biol, 2010 Jun. PMID 20351177, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables box H/ACA snoRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables box H/ACA snoRNA binding IEA
Inferred from Electronic Annotation
more info
  
enables box H/ACA snoRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables telomerase RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables telomerase RNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in pseudouridine synthesis IEA
Inferred from Electronic Annotation
more info
  
involved_in rRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in snoRNA guided rRNA pseudouridine synthesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in snoRNA guided rRNA pseudouridine synthesis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in telomere maintenance via telomerase IEA
Inferred from Electronic Annotation
more info
  
involved_in telomere maintenance via telomerase ISO
Inferred from Sequence Orthology
more info
  
involved_in telomere maintenance via telomerase ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in Cajal body IEA
Inferred from Electronic Annotation
more info
  
part_of box H/ACA snoRNP complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of box H/ACA snoRNP complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of box H/ACA snoRNP complex IEA
Inferred from Electronic Annotation
more info
  
part_of box H/ACA snoRNP complex ISO
Inferred from Sequence Orthology
more info
  
part_of box H/ACA telomerase RNP complex IEA
Inferred from Electronic Annotation
more info
  
part_of box H/ACA telomerase RNP complex ISO
Inferred from Sequence Orthology
more info
  
located_in chromosome, telomeric region IEA
Inferred from Electronic Annotation
more info
  
located_in chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
  
located_in fibrillar center IEA
Inferred from Electronic Annotation
more info
  
located_in fibrillar center 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
  
part_of telomerase holoenzyme complex ISO
Inferred from Sequence Orthology
more info
  
part_of telomerase holoenzyme complex ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
H/ACA ribonucleoprotein complex subunit 1
Names
GAR1 homolog, ribonucleoprotein
GAR1 ribonucleoprotein homolog
nucleolar protein family A member 1
nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs)
snoRNP protein GAR1

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_001024306.1 → NP_001019477.1  H/ACA ribonucleoprotein complex subunit 1

    See identical proteins and their annotated locations for NP_001019477.1

    Status: PROVISIONAL

    Source sequence(s)
    BC079131
    UniProtKB/Swiss-Prot
    Q6AYA1
    UniProtKB/TrEMBL
    A6HVP9, A6HVQ1
    Conserved Domains (1) summary
    pfam04410
    Location:63 → 169
    Gar1; Gar1/Naf1 RNA binding region

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_086020.1 Reference GRCr8

    Range
    221049471..221056749 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6AYA1.1 GenPept UniProtKB/Swiss-Prot:Q6AYA1

Gene LinkOut

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

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