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    Yrdc yrdC domain containing (E.coli) [ Mus musculus (house mouse) ]

    Gene ID: 230734, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Yrdcprovided by MGI
    Official Full Name
    yrdC domain containing (E.coli)provided by MGI
    Primary source
    MGI:MGI:2387201
    See related
    Ensembl:ENSMUSG00000028889 AllianceGenome:MGI:2387201
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    IRIP; ITIP
    Summary
    Predicted to enable nucleotidyltransferase activity and tRNA binding activity. Predicted to be involved in regulation of translational fidelity. Predicted to act upstream of or within negative regulation of transport. Located in membrane. Orthologous to human YRDC (yrdC N6-threonylcarbamoyltransferase domain containing). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in adrenal adult (RPKM 33.7), ovary adult (RPKM 30.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    4 D2.2; 4 57.92 cM
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (124744552..124749035)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (124850759..124855242)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene metal response element binding transcription factor 1 Neighboring gene RIKEN cDNA 1110065P20 gene Neighboring gene predicted gene, 54256 Neighboring gene mannosidase, endo-alpha-like Neighboring gene RIKEN cDNA 1700125G02 gene Neighboring gene Eph receptor A10 Neighboring gene cell division cycle associated 8 Neighboring gene STARR-positive B cell enhancer ABC_E424

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Physical maps of the mouse and human immunoglobulin-like loci. Lai E, et al. Adv Immunol, 1989. PMID 2675563
    2. IRIP, a new ischemia/reperfusion-inducible protein that participates in the regulation of transporter activity. Jiang W, et al. Mol Cell Biol, 2005 Aug. PMID 16024787, Free PMC Article
    3. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    4. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Clone Names

    • MGC38336

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables L-threonylcarbamoyladenylate synthase ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables double-stranded RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotidyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables tRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within negative regulation of transport ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    involved_in regulation of translational fidelity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA threonylcarbamoyladenosine modification ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    threonylcarbamoyl-AMP synthase
    Names
    Ischemia/reperfusion-inducible protein
    mIRIP
    yrdC domain-containing protein, mitochondrial
    NP_705794.2

    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_153566.2 → NP_705794.2  threonylcarbamoyl-AMP synthase precursor

      See identical proteins and their annotated locations for NP_705794.2

      Status: VALIDATED

      Source sequence(s)
      AI413772, AK153627
      Consensus CDS
      CCDS18628.2
      UniProtKB/Swiss-Prot
      B1ARW9, B1ARX2, Q3U5F4, Q7TSY0, Q8CII1
      Related
      ENSMUSP00000099688.5, ENSMUST00000102628.11
      Conserved Domains (1) summary
      COG0009
      Location:70 → 257
      SUA5; tRNA A37 threonylcarbamoyladenosine synthetase subunit TsaC/SUA5/YrdC [Translation, ribosomal structure and biogenesis]

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      124744552..124749035
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3U5F4.1 GenPept UniProtKB/Swiss-Prot:Q3U5F4

    Gene LinkOut

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

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