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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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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

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