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

Gene ID: 306960, updated on 5-Mar-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
Ensembl: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, Apr 2022]
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, ENSRNOT00000023649.6
    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

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