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Aliases for YBX2 Gene

Aliases for YBX2 Gene

  • Y Box Binding Protein 2 2 3
  • Germ Cell-Specific Y-Box-Binding Protein 3 4
  • DNA-Binding Protein C 3 4
  • MSY2 Homolog 3 4
  • CONTRIN 3 4
  • CSDA3 3 4
  • DBPC 3 4
  • MSY2 3 4
  • Germ Cell Specific Y-Box Binding Protein 3
  • Y-Box-Binding Protein 2 3

External Ids for YBX2 Gene

Previous GeneCards Identifiers for YBX2 Gene

  • GC17M007549
  • GC17M007921
  • GC17M007134
  • GC17M007392
  • GC17M007132
  • GC17M007191
  • GC17M007083

Summaries for YBX2 Gene

Entrez Gene Summary for YBX2 Gene

  • This gene encodes a nucleic acid binding protein which is highly expressed in germ cells. The encoded protein binds to a Y-box element in the promoters of certain genes but also binds to mRNA transcribed from these genes. Pseudogenes for this gene are located on chromosome 10 and 15. [provided by RefSeq, Feb 2012]

GeneCards Summary for YBX2 Gene

YBX2 (Y Box Binding Protein 2) is a Protein Coding gene. GO annotations related to this gene include chromatin binding and mRNA 3-UTR binding. An important paralog of this gene is YBX3.

UniProtKB/Swiss-Prot for YBX2 Gene

  • Major constituent of messenger ribonucleoprotein particles (mRNPs). Involved in the regulation of the stability and/or translation of germ cell mRNAs. Binds to Y-box consensus promoter element. Binds to full length mRNA with high affinity in a sequence-independent manner. Binds to short RNA sequences containing the consensus site 5-UCCAUCA-3 with low affinity and limited sequence specificity. Its binding with maternal mRNAs is necessary for its cytoplasmic retention. May mark specific mRNAs (those transcribed from Y-box promoters) in the nucleus for cytoplasmic storage, thereby linking transcription and mRNA storage/translational delay (By similarity).

Gene Wiki entry for YBX2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for YBX2 Gene

Genomics for YBX2 Gene

Regulatory Elements for YBX2 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for YBX2 Gene

Start:
7,288,252 bp from pter
End:
7,294,615 bp from pter
Size:
6,364 bases
Orientation:
Minus strand

Genomic View for YBX2 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for YBX2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YBX2 Gene

Proteins for YBX2 Gene

  • Protein details for YBX2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y2T7-YBOX2_HUMAN
    Recommended name:
    Y-box-binding protein 2
    Protein Accession:
    Q9Y2T7
    Secondary Accessions:
    • D3DTP1
    • Q8N4P0

    Protein attributes for YBX2 Gene

    Size:
    364 amino acids
    Molecular mass:
    38518 Da
    Quaternary structure:
    • Found in a mRNP complex with PABPC1 and YBX3.

neXtProt entry for YBX2 Gene

Proteomics data for YBX2 Gene at MOPED

Post-translational modifications for YBX2 Gene

  • Phosphorylated during oocyte maturation and dephosphorylated following egg activation. Phosphorylated in vitro by a kinase activity associated with testicular mRNPs. Dephosphorylation leads to a decrease in its affinity to bind RNA in vitro (By similarity).
  • Ubiquitination at Lys99 and Lys116
  • Modification sites at PhosphoSitePlus

Other Protein References for YBX2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for YBX2 Gene

Domains for YBX2 Gene

Suggested Antigen Peptide Sequences for YBX2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y2T7

UniProtKB/Swiss-Prot:

YBOX2_HUMAN :
  • Q9Y2T7
Domain:
  • Contains 1 CSD (cold-shock) domain.
genes like me logo Genes that share domains with YBX2: view

No data available for Gene Families for YBX2 Gene

Function for YBX2 Gene

Molecular function for YBX2 Gene

UniProtKB/Swiss-Prot Function: Major constituent of messenger ribonucleoprotein particles (mRNPs). Involved in the regulation of the stability and/or translation of germ cell mRNAs. Binds to Y-box consensus promoter element. Binds to full length mRNA with high affinity in a sequence-independent manner. Binds to short RNA sequences containing the consensus site 5-UCCAUCA-3 with low affinity and limited sequence specificity. Its binding with maternal mRNAs is necessary for its cytoplasmic retention. May mark specific mRNAs (those transcribed from Y-box promoters) in the nucleus for cytoplasmic storage, thereby linking transcription and mRNA storage/translational delay (By similarity).

Gene Ontology (GO) - Molecular Function for YBX2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding --
GO:0003677 DNA binding IEA --
GO:0003682 chromatin binding IEA --
GO:0003729 mRNA binding --
GO:0003730 mRNA 3-UTR binding IEA --
genes like me logo Genes that share ontologies with YBX2: view
genes like me logo Genes that share phenotypes with YBX2: view

Animal Models for YBX2 Gene

MGI Knock Outs for YBX2:

Animal Model Products

CRISPR Products

miRNA for YBX2 Gene

miRTarBase miRNAs that target YBX2

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for YBX2

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for YBX2 Gene

Localization for YBX2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YBX2 Gene

Cytoplasm. Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for YBX2 Gene COMPARTMENTS Subcellular localization image for YBX2 gene
Compartment Confidence
nucleus 5
cytosol 3

Gene Ontology (GO) - Cellular Components for YBX2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 10100484
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm IEA --
GO:0005844 polysome IEA --
GO:0030529 ribonucleoprotein complex --
genes like me logo Genes that share ontologies with YBX2: view

Pathways for YBX2 Gene

SuperPathways for YBX2 Gene

No Data Available

Interacting Proteins for YBX2 Gene

Gene Ontology (GO) - Biological Process for YBX2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription from RNA polymerase II promoter TAS 10100484
GO:0007283 spermatogenesis TAS 10100484
GO:0007286 spermatid development IEA --
GO:0009386 translational attenuation TAS 10100484
genes like me logo Genes that share ontologies with YBX2: view

No data available for Pathways by source for YBX2 Gene

Compounds for YBX2 Gene

(1) Novoseek inferred chemical compound relationships for YBX2 Gene

Compound -log(P) Hits PubMed IDs
ionol 81.8 9
genes like me logo Genes that share compounds with YBX2: view

Transcripts for YBX2 Gene

Unigene Clusters for YBX2 Gene

Y box binding protein 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for YBX2

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for YBX2 Gene

No ASD Table

Relevant External Links for YBX2 Gene

GeneLoc Exon Structure for
YBX2
ECgene alternative splicing isoforms for
YBX2

Expression for YBX2 Gene

mRNA expression in normal human tissues for YBX2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for YBX2 Gene

This gene is overexpressed in Testis (42.5).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for YBX2 Gene

SOURCE GeneReport for Unigene cluster for YBX2 Gene Hs.567494

mRNA Expression by UniProt/SwissProt for YBX2 Gene

Q9Y2T7-YBOX2_HUMAN
Tissue specificity: Expressed in oocytes and testicular germ cells in the stage of spermatogonia to spermatocyte. Also observed placental trophoblasts, as well as in vascular smooth muscle cells in the pulmonary artery, myocardium, and skeletal muscle. Undetectable in epithelial cells in respiratory, gastrointestinal, and urogenital tracts. Up-regulated in various carcinomas and germ cell tumors (at protein level).
genes like me logo Genes that share expressions with YBX2: view

In Situ Assay Products

Orthologs for YBX2 Gene

This gene was present in the common ancestor of animals.

Orthologs for YBX2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia YBX2 35
  • 99.35 (n)
  • 99.35 (a)
YBX2 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia YBX2 35
  • 90.58 (n)
  • 91.56 (a)
YBX2 36
  • 91 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 36
  • 75 (a)
OneToMany
-- 36
  • 90 (a)
OneToMany
YBX2 35
  • 88.89 (n)
  • 91.75 (a)
mouse
(Mus musculus)
Mammalia Ybx2 35
  • 89.62 (n)
  • 91.72 (a)
Ybx2 16
Ybx2 36
  • 91 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia YBX2 36
  • 71 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ybx2 35
  • 89.74 (n)
  • 91.39 (a)
African clawed frog
(Xenopus laevis)
Amphibia FRGY2 35
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.7091 35
fruit fly
(Drosophila melanogaster)
Insecta yps 36
  • 30 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cey-1 36
  • 37 (a)
ManyToMany
cey-2 36
  • 24 (a)
ManyToMany
cey-3 36
  • 23 (a)
ManyToMany
cey-4 36
  • 25 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10127 36
  • 36 (a)
OneToMany
Species with no ortholog for YBX2:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • zebrafish (Danio rerio)

Evolution for YBX2 Gene

ENSEMBL:
Gene Tree for YBX2 (if available)
TreeFam:
Gene Tree for YBX2 (if available)

Paralogs for YBX2 Gene

Paralogs for YBX2 Gene

Selected SIMAP similar genes for YBX2 Gene using alignment to 3 proteins:

Pseudogenes.org Pseudogenes for YBX2 Gene

genes like me logo Genes that share paralogs with YBX2: view

Variants for YBX2 Gene

Sequence variations from dbSNP and Humsavar for YBX2 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs178472 -- 7,294,978(+) ACGAC(A/C/G/T)TGAGC upstream-variant-2KB
rs222838 -- 7,290,129(+) GCCAG(A/G)TTATC intron-variant
rs222839 -- 7,289,382(-) TGGGT(A/C/G)CCCCC intron-variant
rs222840 -- 7,289,364(+) GGAGG(C/G)GGCAC intron-variant
rs222841 -- 7,288,879(+) TTTTG(G/T)TTTTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for YBX2 Gene

Variant ID Type Subtype PubMed ID
esv2422288 CNV Deletion 17116639
nsv457659 CNV Loss 19166990
esv2665200 CNV Deletion 23128226
dgv3053n71 CNV Loss 21882294
nsv907637 CNV Loss 21882294
nsv1963 CNV Loss 18451855
nsv907641 CNV Loss 21882294

Relevant External Links for YBX2 Gene

HapMap Linkage Disequilibrium report
YBX2
Human Gene Mutation Database (HGMD)
YBX2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YBX2 Gene

Disorders for YBX2 Gene

(1) University of Copenhagen DISEASES for YBX2 Gene

(1) Novoseek inferred disease relationships for YBX2 Gene

Disease -log(P) Hits PubMed IDs
shock 34.2 1

Relevant External Links for YBX2

Genetic Association Database (GAD)
YBX2
Human Genome Epidemiology (HuGE) Navigator
YBX2
genes like me logo Genes that share disorders with YBX2: view

No data available for UniProtKB/Swiss-Prot for YBX2 Gene

Publications for YBX2 Gene

  1. Contrin, the human homologue of a germ-cell Y-box-binding protein: cloning, expression, and chromosomal localization. (PMID: 10100484) Tekur S. … Hecht N.B. (J. Androl. 1999) 2 3 4 23
  2. Expression of Y-box-binding protein dbpC/contrin, a potentially new cancer/testis antigen. (PMID: 16479255) Kohno Y. … Sasaguri Y. (Br. J. Cancer 2006) 3 4 23
  3. Sequence alterations in the YBX2 gene are associated with male factor infertility. (PMID: 18339382) Hammoud S. … Carrell D.T. (Fertil. Steril. 2009) 3 23 48
  4. Some single nucleotide polymorphisms of MSY2 gene might contribute to susceptibility to spermatogenic impairment in idiopathic infertile men. (PMID: 18372033) Deng Y. … Zhang S. (Urology 2008) 3 23 48
  5. Mammalian male and female germ cells express a germ cell-specific Y-Box protein, MSY2. (PMID: 9780336) Gu W. … Hecht N.B. (Biol. Reprod. 1998) 2 3

Products for YBX2 Gene

Sources for YBX2 Gene

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