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    3300005D01Rik RIKEN cDNA 3300005D01 gene [ Mus musculus (house mouse) ]

    Gene ID: 78512, updated on 8-Feb-2024

    Summary

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    Official Symbol
    3300005D01Rikprovided by MGI
    Official Full Name
    RIKEN cDNA 3300005D01 geneprovided by MGI
    Primary source
    MGI:MGI:1925762
    See related
    Ensembl:ENSMUSG00000096965 AllianceGenome:MGI:1925762
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Summary
    Acts upstream of or within response to wounding. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in large intestine adult (RPKM 3.0), spleen adult (RPKM 1.6) and 11 other tissues See more
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    Genomic context

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    See 3300005D01Rik in Genome Data Viewer
    Location:
    17 A1; 17 3.47 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (5848932..5853517)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (5798657..5803242)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene zinc finger, DHHC domain containing 14 Neighboring gene predicted gene, 53971 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:5700808-5701009 Neighboring gene STARR-positive B cell enhancer ABC_E11626 Neighboring gene predicted gene, 41519 Neighboring gene STARR-positive B cell enhancer ABC_E7485 Neighboring gene STARR-positive B cell enhancer ABC_E10931 Neighboring gene STARR-positive B cell enhancer ABC_E10932 Neighboring gene ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C2 (subunit 9) pseudogene Neighboring gene predicted gene, 35474 Neighboring gene sorting nexin 9

    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. Identification of candidate long non-coding RNAs in response to myocardial infarction. Zangrando J, et al. BMC Genomics, 2014 Jun 10. PMID 24917243, Free PMC Article
    2. A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome. Mural RJ, et al. Science, 2002 May 31. PMID 12040188
    3. Global discovery of erythroid long noncoding RNAs reveals novel regulators of red cell maturation. Alvarez-Dominguez JR, et al. Blood, 2014 Jan 23. PMID 24200680, Free PMC Article
    4. Widespread and dynamic translational control of red blood cell development. Alvarez-Dominguez JR, et al. Blood, 2017 Feb 2. PMID 27899360, Free PMC Article
    5. The Vertebrate Genome Annotation browser 10 years on. Harrow JL, et al. Nucleic Acids Res, 2014 Jan. PMID 24316575, Free PMC Article

    See all (13) 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) 

    General gene information

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    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    acts_upstream_of_or_within response to wounding IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 

    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.

    RNA

    1. NR_045079.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) is the longest transcript.
      Source sequence(s)
      AK077272, AV287852
      Related
      ENSMUST00000181484.2

    2. NR_045080.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal exon, compared to variant 1.
      Source sequence(s)
      AK019455, AK077272
      Related
      ENSMUST00000181392.3

    3. NR_045081.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' exon, compared to variant 1.
      Source sequence(s)
      AA008373, AC133198, AK077272

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      5848932..5853517
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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