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    Alyref2 Aly/REF export factor 2 [ Mus musculus (house mouse) ]

    Gene ID: 56009, updated on 8-Feb-2024

    Summary

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    Official Symbol
    Alyref2provided by MGI
    Official Full Name
    Aly/REF export factor 2provided by MGI
    Primary source
    MGI:MGI:1913144
    See related
    Ensembl:ENSMUSG00000060244 AllianceGenome:MGI:1913144
    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
    REF2; Refbp2; C130042O11Rik
    Summary
    Enables RNA binding activity and single-stranded DNA binding activity. Involved in mRNA transport. 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. Is expressed in central nervous system and sensory organ. Orthologous to human ALYREF (Aly/REF export factor). [provided by Alliance of Genome Resources, Apr 2022]
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    Genomic context

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    See Alyref2 in Genome Data Viewer
    Location:
    1 H3; 1 79.48 cM
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (171331046..171332318)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (171503478..171504750)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene F11 receptor Neighboring gene STARR-seq mESC enhancer starr_03038 Neighboring gene STARR-seq mESC enhancer starr_03039 Neighboring gene STARR-positive B cell enhancer mm9_chr1:173419517-173419818 Neighboring gene STARR-positive B cell enhancer ABC_E996 Neighboring gene predicted gene, 24871 Neighboring gene intelectin 1 (galactofuranose binding) Neighboring gene predicted gene, 37450

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Mutually exclusive interactions drive handover of mRNA from export adaptors to TAP. Hautbergue GM, et al. Proc Natl Acad Sci U S A, 2008 Apr 1. PMID 18364396, Free PMC Article
    2. The solution structure of REF2-I reveals interdomain interactions and regions involved in binding mRNA export factors and RNA. Golovanov AP, et al. RNA, 2006 Nov. PMID 17000901, Free PMC Article
    3. Competitive and cooperative interactions mediate RNA transfer from herpesvirus saimiri ORF57 to the mammalian export adaptor ALYREF. Tunnicliffe RB, et al. PLoS Pathog, 2014 Feb. PMID 24550725, Free PMC Article
    4. REF, an evolutionary conserved family of hnRNP-like proteins, interacts with TAP/Mex67p and participates in mRNA nuclear export. Stutz F, et al. RNA, 2000 Apr. PMID 10786854, Free PMC Article
    5. Homologs of genes expressed in Caenorhabditis elegans GABAergic neurons are also found in the developing mouse forebrain. Hammock EA, et al. Neural Dev, 2010 Dec 1. PMID 21122108, Free PMC Article

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC117570

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables C5-methylcytidine-containing RNA reader activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding EXP
    Inferred from Experiment
    more info
    		 PubMed 
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    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
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription export complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    aly/REF export factor 2
    Names
    RNA and export factor binding protein 2-I
    RNA and export factor-binding protein 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_019484.4 → NP_062357.3  aly/REF export factor 2

      See identical proteins and their annotated locations for NP_062357.3

      Status: VALIDATED

      Source sequence(s)
      AA189877, AK048243
      Consensus CDS
      CCDS15497.1
      UniProtKB/TrEMBL
      D9J342, G3X9I4
      Related
      ENSMUSP00000080242.2, ENSMUST00000081527.3
      Conserved Domains (3) summary
      COG0724
      Location:75 → 157
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12680
      Location:75 → 149
      RRM_THOC4; RNA recognition motif in THO complex subunit 4 (THOC4) and similar proteins
      pfam07078
      Location:3 → 32
      FYTT; Forty-two-three protein

    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
      171331046..171332318
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JJW6.1 GenPept UniProtKB/Swiss-Prot:Q9JJW6

    Gene LinkOut

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

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