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

Gene ID: 293454, updated on 5-Mar-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
Ensembl: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, Apr 2022]
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
    Related
    ENSRNOP00000025072.6, ENSRNOT00000025072.8
    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
    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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