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    Abt1 activator of basal transcription 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306960, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Abt1provided by RGD
    Official Full Name
    activator of basal transcription 1provided by RGD
    Primary source
    RGD:1310785
    See related
    EnsemblRapid:ENSRNOG00000017585 AllianceGenome:RGD:1310785
    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
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in ribosomal small subunit biogenesis. Predicted to act upstream of or within regulation of transcription by RNA polymerase II and spinal cord motor neuron differentiation. Predicted to be part of transcription regulator complex. Predicted to be active in nucleolus. Orthologous to human ABT1 (activator of basal transcription 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 115.0), Adrenal (RPKM 87.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Abt1 in Genome Data Viewer
    Location:
    17p11
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (42127173..42129281)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (41699151..41701253)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (43946118..43948224)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene transfer RNA tyrosine (anticodon GUA) 7 Neighboring gene transfer RNA tyrosine (anticodon GUA) Neighboring gene uncharacterized LOC108348562 Neighboring gene transfer RNA valine (anticodon AAC) 14 Neighboring gene transfer RNA valine (anticodon CAC)

    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. A novel TATA-binding protein-binding protein, ABT1, activates basal transcription and has a yeast homolog that is essential for growth. Oda T, et al. Mol Cell Biol, 2000 Feb. PMID 10648625, Free PMC Article
    2. Biochemical and genetic evidence for a role of IGHMBP2 in the translational machinery. de Planell-Saguer M, et al. Hum Mol Genet, 2009 Jun 15. PMID 19299493, Free PMC Article
    3. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC116249

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in small-subunit processome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within spinal cord motor neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    activator of basal transcription 1

    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_001025674.1 → NP_001020845.1  activator of basal transcription 1

      See identical proteins and their annotated locations for NP_001020845.1

      Status: VALIDATED

      Source sequence(s)
      BC099109, CV121702
      UniProtKB/Swiss-Prot
      Q4KLM5
      UniProtKB/TrEMBL
      A6KLQ7
      Related
      ENSRNOP00000023648.4, ENSRNOT00000023649.7
      Conserved Domains (1) summary
      cd12263
      Location:47 → 151
      RRM_ABT1_like; RNA recognition motif found in activator of basal transcription 1 (ABT1) and similar proteins

    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_086035.1 Reference GRCr8

      Range
      42127173..42129281
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276442.1 → XP_063132512.1  activator of basal transcription 1 isoform X1

    2. XM_006253972.5 → XP_006254034.1  activator of basal transcription 1 isoform X2

      Conserved Domains (1) summary
      cd12263
      Location:47 → 140
      RRM_ABT1_like; RNA recognition motif found in activator of basal transcription 1 (ABT1) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q4KLM5.1 GenPept UniProtKB/Swiss-Prot:Q4KLM5

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
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