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    Abcf1 ATP binding cassette subfamily F member 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 85493, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Abcf1provided by RGD
    Official Full Name
    ATP binding cassette subfamily F member 1provided by RGD
    Primary source
    RGD:620286
    See related
    EnsemblRapid:ENSRNOG00000000799 AllianceGenome:RGD:620286
    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
    Abc50
    Summary
    Predicted to enable ATP binding activity; ribosome binding activity; and translation activator activity. Predicted to be involved in positive regulation of translation and translational initiation. Located in ribosome. Orthologous to human ABCF1 (ATP binding cassette subfamily F member 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Heart (RPKM 206.0), Thymus (RPKM 159.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Abcf1 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (2807315..2820240)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (2802519..2815433)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (3309914..3322828)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene G protein nucleolar 1 Neighboring gene proline rich 3 Neighboring gene microRNA 877 Neighboring gene protein phosphatase 1, regulatory subunit 10 Neighboring gene mitochondrial ribosomal protein S18B

    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. ABC50 promotes translation initiation in mammalian cells. Paytubi S, et al. J Biol Chem, 2009 Sep 4. PMID 19570978, Free PMC Article
    2. ABC50 interacts with eukaryotic initiation factor 2 and associates with the ribosome in an ATP-dependent manner. Tyzack JK, et al. J Biol Chem, 2000 Nov 3. PMID 10931828
    3. The N-terminal region of ABC50 interacts with eukaryotic initiation factor eIF2 and is a target for regulatory phosphorylation by CK2. Paytubi S, et al. Biochem J, 2008 Jan 1. PMID 17894550
    4. The genomic sequence and comparative analysis of the rat major histocompatibility complex. Hurt P, et al. Genome Res, 2004 Apr. PMID 15060004, Free PMC Article
    5. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ATP binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ribosome binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ribosome binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables translation activator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables translation activator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    NOT involved_in ribosome biogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in ribosome biogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in translation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in translational initiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in translational initiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear envelope ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear envelope ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in ribosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    ATP-binding cassette sub-family F member 1
    Names
    ATP-binding cassette 50
    ATP-binding cassette, sub-family F (GCN20), member 1
    ATP-binding cassette, subfamily F (GCN20), member 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_001109883.2 → NP_001103353.1  ATP-binding cassette sub-family F member 1

      See identical proteins and their annotated locations for NP_001103353.1

      Status: VALIDATED

      Source sequence(s)
      BP495802, BX883048, CB801303, CK356298, CV114142, EV771702, EV773343
      UniProtKB/Swiss-Prot
      Q6MG08, Q9ERQ2
      UniProtKB/TrEMBL
      A0A8L2PZQ3, A6KT63
      Related
      ENSRNOP00000001049.9, ENSRNOT00000001049.10
      Conserved Domains (2) summary
      cd03221
      Location:298 → 519
      ABCF_EF-3; ATP-binding cassette domain of elongation factor 3, subfamily F
      COG0488
      Location:296 → 827
      Uup; ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

    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_086038.1 Reference GRCr8

      Range
      2807315..2820240
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017601783.3 → XP_017457272.1  ATP-binding cassette sub-family F member 1 isoform X1

      UniProtKB/TrEMBL
      A0A8L2PZQ3, A6KT63
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6MG08.1 GenPept UniProtKB/Swiss-Prot:Q6MG08

    Gene LinkOut

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

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