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    Alyreffm1 Aly/REF export factor family member 1 [ Mus musculus (house mouse) ]

    Gene ID: 70988, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Alyreffm1provided by MGI
    Official Full Name
    Aly/REF export factor family member 1provided by MGI
    Primary source
    MGI:MGI:1918238
    See related
    Ensembl:ENSMUSG00000086727 AllianceGenome:MGI:1918238
    Gene type
    ncRNA
    RefSeq status
    PREDICTED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4930563O14Rik; 4931428L18Rik
    Summary
    Predicted to enable C5-methylcytidine-containing RNA reader activity and mRNA binding activity. Predicted to be involved in mRNA export from nucleus. Predicted to be located in cytoplasm. Predicted to be part of catalytic step 2 spliceosome; exon-exon junction complex; and transcription export complex. Predicted to be active in nucleus. Predicted to colocalize with chromosome, telomeric region. Orthologous to human ALYREF (Aly/REF export factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward testis adult (RPKM 17.8) See more
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    Genomic context

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    See Alyreffm1 in Genome Data Viewer
    Location:
    1 B; 1 11.52 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (31180159..31261737, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (31141078..31222656, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene THO complex 4 pseudogene Neighboring gene predicted gene 29669 Neighboring gene predicted gene 28644 Neighboring gene STARR-seq mESC enhancer starr_00518 Neighboring gene protein kinase inhibitor, gamma pseudogene Neighboring gene lengsin, lens protein with glutamine synthetase domain Neighboring gene dynein axonemal assembly factor 6, retrotransposed Neighboring gene predicted gene, 26145

    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. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    2. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    3. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    4. 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
    5. 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

    See all (10) 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 C5-methylcytidine-containing RNA reader activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    colocalizes_with chromosome, telomeric region ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of exon-exon junction complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription export complex ISO
    Inferred from Sequence Orthology
    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_033445.1 RNA Sequence

      Status: PREDICTED

      Source sequence(s)
      AK016212, AK016483, BC147546
      Related
      ENSMUST00000127775.8

    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_000067.7 Reference GRCm39 C57BL/6J

      Range
      31180159..31261737 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_027637.3: Suppressed sequence

      Description
      NM_027637.3: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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