ZFIN ID: ZDB-GENE-000629-3
Gene Name: Y box binding protein 1
Gene Symbol: ybx1    Nomenclature History

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Previous Names: yb1, hm:zeh0308, nsep1 (1), wu:fb01g10 (1), wu:fb08c05 (1), wu:fb16e10, wu:fj26c09 (1), Y-box binding protein 1, zfY1 (1), zgc:85599

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(Including Attributions)
Gene Type: protein_coding_gene
Location: Chr: 8 Mapping Details/Browsers
Description: Exhibits RNA binding activity and eukaryotic initiation factor 4E binding activity. Involved in establishment of RNA localization and negative regulation of gene expression. Localizes to the nucleus. Is expressed in eye. Orthologous to several human genes including YBX1 (Y-box binding protein 1).
Genome Resources: Alliance (1),  Gene:795398 (1),  Ensembl(GRCz11):ENSDARG00000004757 (2)
GENE EXPRESSION
All Expression Data: 10 figures from 7 publications
Directly Submitted Expression Data: 1 figure (1 image) from Thisse et al., 2004 [MGC:55205]
  1 figure (1 image) from Rauch et al., 2003 [fb16e10]
Wild-type Stages, Structures: Zygote:1-cell (0.0h-0.75h) to Adult (90d-730d, breeding adult)
 
Curated Microarray Expression: GEO (1) , Expression Atlas (1)
MUTATIONS AND SEQUENCE TARGETING REAGENTS
Allele Type Localization Consequence Mutagen Suppliers
sa42 Point Mutation Unknown Missense ENU
  • Zebrafish International Resource Center (ZIRC) (order this)
  • sa21381 Point Mutation Unknown Splice Site ENU
  • European Zebrafish Resource Center (EZRC) (order this)
  • Zebrafish International Resource Center (ZIRC) (order this)
  • sa21382 Point Mutation Unknown Premature Stop ENU
  • European Zebrafish Resource Center (EZRC) (order this)
  • Zebrafish International Resource Center (ZIRC) (order this)
  • sa34489 Point Mutation Unknown Premature Stop ENU
  • European Zebrafish Resource Center (EZRC) (order this)
  • Zebrafish International Resource Center (ZIRC) (order this)
  • sg8 Small Deletion Exon 5 Frameshift, Premature Stop ZINC_FINGER_NUCLEASE
    tsu3d5i Indel Unknown Premature Stop CRISPR
    tsu27 Indel Exon 1 Unknown CRISPR
  • China Zebrafish Resource Center (CZRC) (order this)
  • zf2165 Complex Unknown Unknown CRISPR
    Sequence Targeting Reagents
    Targeting Reagent Created Alleles Publications
    CRISPR1-ybx1
    1
    CRISPR2-ybx1 1
    CRISPR3-ybx1 1
    CRISPR4-ybx1
    1
    MO1-ybx1 N/A 1
    MO2-ybx1 N/A 1
    MO3-ybx1 N/A 1
    MO4-ybx1 N/A 1
    TALEN1-ybx1
    1
    DISEASE ASSOCIATED WITH ybx1 HUMAN ORTHOLOG No data available
    DISEASE ASSOCIATED WITH ybx1 VIA EXPERIMENTAL MODELS No data available
    GENE ONTOLOGY
    Ontology GO Term
    Biological Process egg activation (more)
    Cellular Component nucleus (more)
    Molecular Function C5-methylcytidine-containing RNA binding (more)
    GO Terms (all 30)
    PROTEIN FAMILIES, DOMAINS AND SITES
    Type InterPro ID Name
    Domain IPR002059 Cold-shock protein, DNA-binding
    Domain IPR011129 Cold shock domain
    Domain IPR019844 Cold-shock (CSD) domain
    Homologous_superfamily IPR012340 Nucleic acid-binding, OB-fold
    TRANSCRIPTS
    Type Name Length (nt) Analysis
    mRNA ybx1-201 (1)    Ensembl 1515
    ncRNA ybx1-002 (1)    Ensembl 762
    ybx1-003 (1)    Ensembl 686
    Browsers: UCSCNCBIEnsemblZFIN
    INTERACTIONS AND PATHWAYS
    ANTIBODIES
    Name Type Isotype Host Organism Assay Source Publications
    Ab2-ybx1 polyclonal IgG Rabbit IHC, WB Abcam plc
    3
    Ab3-ybx1 monoclonal IgG , k Mouse IHC, WB Santa Cruz Biotechnology, Inc.
    2
    Ab4-ybx1 polyclonal Rabbit IHC Sigma-Aldrich
    3
    PLASMIDS No data available
    CONSTRUCTS WITH SEQUENCES FROM ybx1
    Construct Regulatory Regions Coding Sequences Species Tg Lines Publications
    tg(eef1a1l1:gfp-ybx1) eef1a1l1 GFPybx1 Danio rerio 1 1
    Tg(ybx1:ybx1-2A-GFP) ybx1 GFPybx1 Danio rerio 2 3
    MARKER RELATIONSHIPS
    ybx1 Contained in: [BAC] DKEYP-100A1 (1)
    ybx1 Encodes: [EST] fb01g10 (1), fb08c05 (1), fb16e10 (1) (order this), fj26c09 (1), zeh0308
    [cDNA] MGC:55205 (1), MGC:85599 (1), MGC:158477 (1), MGC:174067 (1), MGC:174962 (1), MGC:175087 (1)
    SEQUENCE INFORMATION
    Type Accession # Length (nt/aa) Analysis
    RNA RefSeq:NM_001126457 (1) 1515 nt
    Genomic GenBank:CR792439 (1) 170028 nt
    Select Tool
    Polypeptide UniProtKB:B5DE31 (1) 310 aa
    Sequence Information (all 40)
    ORTHOLOGY for ybx1 ( Chr: 8 )
    CITATIONS (47)