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    AV039307 expressed sequence AV039307 [ Mus musculus (house mouse) ]

    Gene ID: 100502700, updated on 8-Feb-2024

    Summary

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    Official Symbol
    AV039307provided by MGI
    Official Full Name
    expressed sequence AV039307provided by MGI
    Primary source
    MGI:MGI:2139243
    See related
    Ensembl:ENSMUSG00000087519 AllianceGenome:MGI:2139243
    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
    Expression
    Broad expression in CNS E11.5 (RPKM 11.3), testis adult (RPKM 9.0) and 23 other tissues See more
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    Genomic context

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    Location:
    2 E5; 2 60.37 cM
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (120681137..120697171)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (120850656..120866690)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene StAR related lipid transfer domain containing 9 Neighboring gene codanin 1 Neighboring gene tau tubulin kinase 2 Neighboring gene STARR-seq mESC enhancer starr_05516 Neighboring gene STARR-positive B cell enhancer ABC_E3396 Neighboring gene ubiquitin protein ligase E3 component n-recognin 1 Neighboring gene STARR-positive B cell enhancer ABC_E5971 Neighboring gene STARR-positive B cell enhancer ABC_E147 Neighboring gene transmembrane protein 62 Neighboring gene small nucleolar RNA, C/D box 3B, pseudogene 2 Neighboring gene cyclin D-type binding-protein 1

    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. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    2. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    3. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article
    4. Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes. Carninci P, et al. Genome Res, 2000 Oct. PMID 11042159, Free PMC Article
    5. Functional annotation of a full-length mouse cDNA collection. Kawai J, et al. Nature, 2001 Feb 8. PMID 11217851

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    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_038349.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AK015969, AL935168
      Related
      ENSMUST00000124795.2

    2. NR_038350.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' region, lacks one exon and includes one alternate exon, compared to variant 1.
      Source sequence(s)
      AK006022, AL935168
      Related
      ENSMUST00000133643.8

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      120681137..120697171
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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