Gene description for Ybx1
Gene name Y box binding protein 1
Gene symbol Ybx1
Other names/aliases Byb1
Cbfa
Dbpb
Ef1a
Msy1
Nsep1
Yb1
Species Rattus norvegicus
 Database cross references - Ybx1
ExoCarta ExoCarta_500538
Vesiclepedia VP_500538
Entrez Gene 500538
UniProt P62961  
 Ybx1 identified in sEVs derived from the following tissue/cell type
Reticulocytes 21828046    
 Gene ontology annotations for Ybx1
Molecular Function
    p53 binding GO:0002039 IMP
    nucleic acid binding GO:0003676 IBA
    DNA binding GO:0003677 IEA
    chromatin binding GO:0003682 ISO
    single-stranded DNA binding GO:0003697 IDA
    single-stranded DNA binding GO:0003697 ISO
    RNA binding GO:0003723 IDA
    RNA binding GO:0003723 ISO
    RNA binding GO:0003723 ISS
    mRNA binding GO:0003729 IPI
    mRNA binding GO:0003729 ISO
    protein binding GO:0005515 IPI
    miRNA binding GO:0035198 ISO
    miRNA binding GO:0035198 ISS
    sequence-specific DNA binding GO:0043565 IDA
    GTPase binding GO:0051020 ISO
    C5-methylcytidine-containing RNA reader activity GO:0062153 ISO
    C5-methylcytidine-containing RNA reader activity GO:0062153 ISS
    sequence-specific double-stranded DNA binding GO:1990837 ISO
Biological Process
    negative regulation of transcription by RNA polymerase II GO:0000122 IDA
    negative regulation of transcription by RNA polymerase II GO:0000122 ISO
    negative regulation of transcription by RNA polymerase II GO:0000122 ISO
    in utero embryonic development GO:0001701 ISO
    regulation of DNA-templated transcription GO:0006355 ISO
    mRNA processing GO:0006397 IEA
    positive regulation of cell population proliferation GO:0008284 IMP
    RNA splicing GO:0008380 IEA
    epidermis development GO:0008544 ISO
    epidermis development GO:0008544 ISS
    regulation of gene expression GO:0010468 IBA
    negative regulation of macromolecule biosynthetic process GO:0010558 IEA
    negative regulation of translation GO:0017148 ISS
    negative regulation of apoptotic process GO:0043066 IDA
    positive regulation of transcription by RNA polymerase II GO:0045944 IMP
    positive regulation of transcription by RNA polymerase II GO:0045944 ISO
    negative regulation of insulin receptor signaling pathway GO:0046627 IMP
    mRNA stabilization GO:0048255 ISO
    mRNA stabilization GO:0048255 ISS
    embryonic morphogenesis GO:0048598 ISS
    RNA transport GO:0050658 ISO
    RNA transport GO:0050658 ISS
    tRNA transport GO:0051031 ISO
    tRNA transport GO:0051031 ISS
    negative regulation of striated muscle cell differentiation GO:0051154 ISO
    negative regulation of RNA metabolic process GO:0051253 IEA
    positive regulation of cell division GO:0051781 IEA
    CRD-mediated mRNA stabilization GO:0070934 ISO
    CRD-mediated mRNA stabilization GO:0070934 ISS
    cellular response to interleukin-7 GO:0098761 ISO
    negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay GO:1900152 ISO
    protein localization to cytoplasmic stress granule GO:1903608 ISO
    miRNA transport GO:1990428 ISO
    miRNA transport GO:1990428 ISS
    positive regulation of cytoplasmic translation GO:2000767 ISO
    negative regulation of cellular senescence GO:2000773 ISO
    negative regulation of cellular senescence GO:2000773 ISS
Subcellular Localization
    P-body GO:0000932 ISO
    nucleus GO:0005634 IBA
    nucleus GO:0005634 IEA
    nucleus GO:0005634 ISO
    U12-type spliceosomal complex GO:0005689 ISO
    cytoplasm GO:0005737 ISO
    endoplasmic reticulum GO:0005783 ISO
    cytosol GO:0005829 ISO
    plasma membrane GO:0005886 ISO
    cytoplasmic stress granule GO:0010494 ISO
    cytoplasmic stress granule GO:0010494 ISS
    dendrite GO:0030425 IDA
    protein-containing complex GO:0032991 IDA
    neuronal cell body GO:0043025 IDA
    intracellular membrane-bounded organelle GO:0043231 ISO
    synapse GO:0045202 ISO
    perinuclear region of cytoplasm GO:0048471 IDA
    extracellular exosome GO:0070062 ISO
    extracellular exosome GO:0070062 ISS
    CRD-mediated mRNA stability complex GO:0070937 ISO
    histone pre-mRNA 3'end processing complex GO:0071204 ISO
    histone pre-mRNA 3'end processing complex GO:0071204 ISS
    ribonucleoprotein complex GO:1990904 ISO
    ribonucleoprotein complex GO:1990904 ISS
 Experiment description of studies that identified Ybx1 in sEVs
1
Experiment ID 95
MISEV standards
EM
Biophysical techniques
TSG101|HSP90|HSC70|MHCI
Enriched markers
Negative markers
Particle analysis
Identified molecule protein
Identification method Mass spectrometry [Orbitrap]
PubMed ID 21828046    
Organism Rattus norvegicus
Experiment description The proteo-lipidic composition of exosomes changes during reticulocyte maturation.
Authors "Carayon K, Chaoui K, Ronzier E, Lazar I, Bertrand-Michel J, Roques V, Balor S, Terce F, Lopez A, Salome L, Joly E."
Journal name JBC
Publication year 2011
Sample Reticulocytes
Sample name Reticulocytes - D7 Rep 1
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Sucrose density gradient
Flotation density 1.13-1.25 g/mL
Molecules identified in the study Protein
Lipids
Methods used in the study Mass spectrometry [QSTAR]
Mass spectrometry [Orbitrap]
Western blotting
 Protein-protein interactions for Ybx1
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 Klf4  
Affinity Capture-Western Rattus norvegicus
Affinity Capture-Western Rattus norvegicus
2 Slc8a1  
Affinity Capture-MS Rattus norvegicus
3 Rara  
Affinity Capture-Western Rattus norvegicus
Affinity Capture-Western Rattus norvegicus
4 Slc8a1  
Reconstituted Complex Mus musculus
5 Sp1  
Affinity Capture-Western Rattus norvegicus
Affinity Capture-Western Rattus norvegicus
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