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    Ubfd1 ubiquitin family domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293454, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ubfd1provided by RGD
    Official Full Name
    ubiquitin family domain containing 1provided by RGD
    Primary source
    RGD:1306614
    See related
    EnsemblRapid:ENSRNOG00000018243 AllianceGenome:RGD:1306614
    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
    Ubph; RGD1306614
    Summary
    Orthologous to human UBFD1 (ubiquitin family domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 116.3), Brain (RPKM 110.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ubfd1 in Genome Data Viewer
    Location:
    1q36
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (186057267..186068832)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (176626003..176640993)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (192025453..192040506)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483818 Neighboring gene golgi associated, gamma adaptin ear containing, ARF binding protein 2 Neighboring gene glutamyl-tRNA synthetase 2, mitochondrial Neighboring gene NADH:ubiquinone oxidoreductase subunit AB1 Neighboring gene partner and localizer of BRCA2

    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. E-cadherin interactome complexity and robustness resolved by quantitative proteomics. Guo Z, et al. Sci Signal, 2014 Dec 2. PMID 25468996, Free PMC Article
    2. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    General protein information

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    Preferred Names
    ubiquitin domain-containing protein UBFD1
    Names
    ubiquitin-binding protein homolog

    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_001034911.1 → NP_001030083.1  ubiquitin domain-containing protein UBFD1

      Status: VALIDATED

      Source sequence(s)
      BC101866, CK839597
      UniProtKB/TrEMBL
      Q3MIF1
      Conserved Domains (2) summary
      smart00213
      Location:86 → 155
      UBQ; Ubiquitin homologues
      pfam00240
      Location:89 → 156
      ubiquitin; Ubiquitin family

    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
      186057267..186068832
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006230189.5 → XP_006230251.1  ubiquitin domain-containing protein UBFD1 isoform X1

      UniProtKB/TrEMBL
      A6I8V8, G3V8E4
      Related
      ENSRNOP00000025072.7, ENSRNOT00000025072.9
      Conserved Domains (2) summary
      smart00213
      Location:145 → 214
      UBQ; Ubiquitin homologues
      pfam00240
      Location:148 → 215
      ubiquitin; Ubiquitin family

    2. XM_039107149.2 → XP_038963077.1  ubiquitin domain-containing protein UBFD1 isoform X2

      Conserved Domains (1) summary
      cd17047
      Location:145 → 214
      Ubl_UBFD1; ubiquitin-like (Ubl) domain found in ubiquitin domain-containing protein UBFD1 and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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