Format

Send to:

Choose Destination
    • Showing Current items.

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

    Gene ID: 21681, updated on 23-Jun-2021

    Summary

    Official Symbol
    Alyrefprovided by MGI
    Official Full Name
    Aly/REF export factorprovided by MGI
    Primary source
    MGI:MGI:1341044
    See related
    Ensembl:ENSMUSG00000025134
    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
    Aly; REF; Ref1; Refb; Tho4; Thoc; Thoc4; Ref1-I; Refbp1
    Expression
    Broad expression in CNS E11.5 (RPKM 97.1), liver E14 (RPKM 68.0) and 24 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Alyref in Genome Data Viewer
    Location:
    11; 11 E2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (120485330..120489342, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (120594504..120598399, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (120455830..120459679, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene prolyl 4-hydroxylase, beta polypeptide Neighboring gene Rho GDP dissociation inhibitor (GDI) alpha Neighboring gene anaphase promoting complex subunit 11 Neighboring gene neuropeptide B Neighboring gene phosphate cytidylyltransferase 2, ethanolamine

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables C5-methylcytidine-containing RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    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
    PubMed 
    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
     
    acts_upstream_of_or_within mRNA transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of DNA-templated transcription, elongation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA recombination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in replication fork processing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in viral mRNA export from host cell 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
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus TAS
    Traceable Author Statement
    more info
    PubMed 
    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

    Preferred Names
    THO complex subunit 4
    Names
    RNA and export factor binding protein 1
    THO complex 4
    Tcra enhancer-binding factor interacting protein 1
    ally of AML-1 and LEF-1
    transcriptional coactivator Aly/REF

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_011568.1NP_035698.1  THO complex subunit 4

      See identical proteins and their annotated locations for NP_035698.1

      Status: VALIDATED

      Source sequence(s)
      U89876
      Consensus CDS
      CCDS25744.1
      UniProtKB/Swiss-Prot
      O08583
      Related
      ENSMUSP00000026125.3, ENSMUST00000026125.3
      Conserved Domains (1) summary
      cd12680
      Location:106179
      RRM_THOC4; RNA recognition motif in THO complex subunit 4 (THOC4) and similar proteins

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      120485330..120489342 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_001779950.3 RNA Sequence

    Support Center