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Aliases for YTHDF2 Gene

Aliases for YTHDF2 Gene

  • YTH N6-Methyladenosine RNA Binding Protein 2 2 3 5
  • YTH N(6)-Methyladenosine RNA Binding Protein 2 2 3
  • High-Glucose-Regulated Protein 8 3 4
  • Renal Carcinoma Antigen NY-REN-2 3 4
  • CLL-Associated Antigen KW-14 3 4
  • YTH Domain Family, Member 2 2 3
  • HGRG8 3 4
  • YTH Domain-Containing Family Protein 2 3
  • YTH Domain Family 2 2
  • 9430020E02Rik 3
  • NY-REN-2 3
  • CAHL 3

External Ids for YTHDF2 Gene

Previous GeneCards Identifiers for YTHDF2 Gene

  • GC01P028884
  • GC01P028935
  • GC01P029063
  • GC01P027315

Summaries for YTHDF2 Gene

Entrez Gene Summary for YTHDF2 Gene

  • This gene encodes a member of the YTH (YT521-B homology) superfamily containing YTH domain. The YTH domain is typical for the eukaryotes and is particularly abundant in plants. The YTH domain is usually located in the middle of the protein sequence and may function in binding to RNA. In addition to a YTH domain, this protein has a proline rich region which may be involved in signal transduction. An Alu-rich domain has been identified in one of the introns of this gene, which is thought to be associated with human longevity. In addition, reciprocal translocations between this gene and the Runx1 (AML1) gene on chromosome 21 has been observed in patients with acute myeloid leukemia. This gene was initially mapped to chromosome 14, which was later turned out to be a pseudogene. Alternatively spliced transcript variants encoding different isoforms have been identified in this gene. [provided by RefSeq, Oct 2012]

GeneCards Summary for YTHDF2 Gene

YTHDF2 (YTH N6-Methyladenosine RNA Binding Protein 2) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding and N6-methyladenosine-containing RNA binding. An important paralog of this gene is YTHDF3.

UniProtKB/Swiss-Prot for YTHDF2 Gene

  • Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs, and regulates mRNA stability (PubMed:24284625, PubMed:26046440, PubMed:26318451). M6A is a modification present at internal sites of mRNAs and some non-coding RNAs and plays a role in the efficiency of mRNA splicing, processing and stability (PubMed:22575960, PubMed:24284625, PubMed:25412658, PubMed:25412661). Acts as a regulator of mRNA stability: binding to m6A-containing mRNAs results in the localization to mRNA decay sites, such as processing bodies (P-bodies), leading to mRNA degradation (PubMed:24284625, PubMed:26046440). Also acts as a promoter of cap-independent mRNA translation following heat shock stress: upon stress, relocalizes to the nucleus and specifically binds mRNAs with some m6A methylation mark at their 5-UTR, protecting demethylation of mRNAs by FTO, thereby promoting cap-independent mRNA translation (PubMed:26458103).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for YTHDF2 Gene

Genomics for YTHDF2 Gene

Regulatory Elements for YTHDF2 Gene

Enhancers for YTHDF2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01F028373 1.2 Ensembl ENCODE 9.8 -362.4 -362377 1.7 INSM2 ZNF76 KLF17 FEZF1 GLI4 ZNF2 ZEB1 ZNF121 ZNF366 KLF7 PHACTR4 ENSG00000237934 GMEB1 ENSG00000231344 TAF12 SNHG12 SESN2 TRNAU1AP YTHDF2 SNORA73B
GH01F028368 1.1 ENCODE 9.8 -366.5 -366542 2.4 HDGF CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF143 PHACTR4 SNHG12 TRNAU1AP GMEB1 TMEM200B SESN2 YTHDF2 THEMIS2 ENSG00000206779
GH01F028375 0.6 ENCODE 9.8 -360.3 -360316 1.3 SP5 NR2F1 IKZF1 ZBTB33 NR2F6 PHACTR4 SESN2 YTHDF2 LOC105376896 ENSG00000206779
GH01F029176 1.4 FANTOM5 Ensembl ENCODE 1.6 +440.8 440832 1.9 SAP130 ZNF384 CEBPG ZIC2 ZNF664 ZFHX2 ELK1 EGR2 SCRT1 GATAD2A EPB41 TMEM200B SRSF4 YTHDF2 ENSG00000277916
GH01F028374 0.2 Ensembl 9.8 -363.5 -363521 0.2 PHACTR4 SESN2 YTHDF2 ENSG00000206779
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around YTHDF2 on UCSC Golden Path with GeneCards custom track

Promoters for YTHDF2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000280896 579 2801 HDGF ARNT CREB3L1 MLX ARID4B SIN3A YBX1 FEZF1 DMAP1 ZNF2

Genomic Location for YTHDF2 Gene

Chromosome:
1
Start:
28,736,621 bp from pter
End:
28,769,775 bp from pter
Size:
33,155 bases
Orientation:
Plus strand

Genomic View for YTHDF2 Gene

Genes around YTHDF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
YTHDF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for YTHDF2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YTHDF2 Gene

Proteins for YTHDF2 Gene

  • Protein details for YTHDF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5A9-YTHD2_HUMAN
    Recommended name:
    YTH domain-containing family protein 2
    Protein Accession:
    Q9Y5A9
    Secondary Accessions:
    • A6NKG4
    • A8K966
    • B4E1G7
    • D3DPM8
    • Q5VSZ9
    • Q8TDH0
    • Q9BUJ5

    Protein attributes for YTHDF2 Gene

    Size:
    579 amino acids
    Molecular mass:
    62334 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAD42861.1; Type=Frameshift; Positions=565; Evidence={ECO:0000305}; Sequence=AAF08813.1; Type=Frameshift; Positions=565; Evidence={ECO:0000305}; Sequence=AAL99921.1; Type=Miscellaneous discrepancy; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for YTHDF2 Gene

    Alternative splice isoforms for YTHDF2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for YTHDF2 Gene

Post-translational modifications for YTHDF2 Gene

  • Ubiquitination at Lys 401 and Lys 408
  • Modification sites at PhosphoSitePlus

Other Protein References for YTHDF2 Gene

No data available for DME Specific Peptides for YTHDF2 Gene

Domains & Families for YTHDF2 Gene

Protein Domains for YTHDF2 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for YTHDF2 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y5A9

UniProtKB/Swiss-Prot:

YTHD2_HUMAN :
  • Contains 1 YTH domain.
Domain:
  • Contains 1 YTH domain.
genes like me logo Genes that share domains with YTHDF2: view

No data available for Gene Families for YTHDF2 Gene

Function for YTHDF2 Gene

Molecular function for YTHDF2 Gene

UniProtKB/Swiss-Prot Function:
Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs, and regulates mRNA stability (PubMed:24284625, PubMed:26046440, PubMed:26318451). M6A is a modification present at internal sites of mRNAs and some non-coding RNAs and plays a role in the efficiency of mRNA splicing, processing and stability (PubMed:22575960, PubMed:24284625, PubMed:25412658, PubMed:25412661). Acts as a regulator of mRNA stability: binding to m6A-containing mRNAs results in the localization to mRNA decay sites, such as processing bodies (P-bodies), leading to mRNA degradation (PubMed:24284625, PubMed:26046440). Also acts as a promoter of cap-independent mRNA translation following heat shock stress: upon stress, relocalizes to the nucleus and specifically binds mRNAs with some m6A methylation mark at their 5-UTR, protecting demethylation of mRNAs by FTO, thereby promoting cap-independent mRNA translation (PubMed:26458103).
UniProtKB/Swiss-Prot Induction:
Following heat shock stress.

Gene Ontology (GO) - Molecular Function for YTHDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 24965446
GO:0044822 poly(A) RNA binding IDA 22658674
GO:1990247 N6-methyladenosine-containing RNA binding IDA 22575960
genes like me logo Genes that share ontologies with YTHDF2: view
genes like me logo Genes that share phenotypes with YTHDF2: view

Animal Model Products

miRNA for YTHDF2 Gene

miRTarBase miRNAs that target YTHDF2

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YTHDF2 Gene

Localization for YTHDF2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YTHDF2 Gene

Cytoplasm, cytosol. Nucleus. Cytoplasm, P-body. Note=Localizes to the cytosol and relocates to the nucleus following heat shock stress (PubMed:26458103). {ECO:0000269 PubMed:26458103}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for YTHDF2 gene
Compartment Confidence
nucleus 5
cytosol 5

Gene Ontology (GO) - Cellular Components for YTHDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 cytoplasmic mRNA processing body IDA 24284625
GO:0005634 nucleus IEA,IDA 26458103
GO:0005737 cytoplasm IDA --
GO:0005829 cytosol IEA,IDA 26458103
genes like me logo Genes that share ontologies with YTHDF2: view

Pathways & Interactions for YTHDF2 Gene

SuperPathways for YTHDF2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YTHDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006959 humoral immune response TAS 10508479
GO:0043488 regulation of mRNA stability IMP 24284625
GO:1903679 positive regulation of cap-independent translational initiation IDA 26458103
genes like me logo Genes that share ontologies with YTHDF2: view

No data available for Pathways by source and SIGNOR curated interactions for YTHDF2 Gene

Transcripts for YTHDF2 Gene

Unigene Clusters for YTHDF2 Gene

YTH domain family, member 2:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for YTHDF2 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d · 6e ^ 7 ^ 8
SP1: - - - -
SP2: - -
SP3:
SP4:
SP5: - -
SP6: - -
SP7: - - - - - - - -

Relevant External Links for YTHDF2 Gene

GeneLoc Exon Structure for
YTHDF2
ECgene alternative splicing isoforms for
YTHDF2

Expression for YTHDF2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for YTHDF2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for YTHDF2 Gene

This gene is overexpressed in Bone (16.7) and Breast (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for YTHDF2 Gene



Protein tissue co-expression partners for YTHDF2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of YTHDF2 Gene:

YTHDF2

SOURCE GeneReport for Unigene cluster for YTHDF2 Gene:

Hs.532286
genes like me logo Genes that share expression patterns with YTHDF2: view

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for YTHDF2 Gene

Orthologs for YTHDF2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for YTHDF2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia YTHDF2 34 35
  • 99.94 (n)
cow
(Bos Taurus)
Mammalia YTHDF2 34 35
  • 97.24 (n)
dog
(Canis familiaris)
Mammalia YTHDF2 34 35
  • 96.74 (n)
oppossum
(Monodelphis domestica)
Mammalia YTHDF2 35
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ythdf2 34 16 35
  • 95.68 (n)
rat
(Rattus norvegicus)
Mammalia Ythdf2 34
  • 94.52 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia YTHDF2 35
  • 87 (a)
OneToOne
chicken
(Gallus gallus)
Aves YTHDF2 34 35
  • 82.86 (n)
lizard
(Anolis carolinensis)
Reptilia YTHDF2 35
  • 92 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ythdf2 34
  • 70.08 (n)
zebrafish
(Danio rerio)
Actinopterygii yth2 34 35
  • 72.81 (n)
zgc56224 34
fruit fly
(Drosophila melanogaster)
Insecta CG6422 35
  • 28 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes -- 35
  • 30 (a)
OneToMany
rice
(Oryza sativa)
Liliopsida Os.8783 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6332 35
  • 45 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4206 34
Species where no ortholog for YTHDF2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for YTHDF2 Gene

ENSEMBL:
Gene Tree for YTHDF2 (if available)
TreeFam:
Gene Tree for YTHDF2 (if available)

Paralogs for YTHDF2 Gene

Paralogs for YTHDF2 Gene

(4) SIMAP similar genes for YTHDF2 Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for YTHDF2 Gene

genes like me logo Genes that share paralogs with YTHDF2: view

Variants for YTHDF2 Gene

Sequence variations from dbSNP and Humsavar for YTHDF2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10659213 -- 28,765,433(+) AAAAG(-/TT)TTTTG intron-variant
rs10915191 -- 28,739,594(+) CCATG(C/G)CCGGC intron-variant
rs10915192 -- 28,740,682(+) AAGAC(C/T)TCACT intron-variant
rs10915193 -- 28,746,780(+) AATTT(A/G)GGTTT intron-variant
rs10915194 -- 28,748,471(+) ACTTC(A/G)TCCTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for YTHDF2 Gene

Variant ID Type Subtype PubMed ID
esv2745830 CNV deletion 23290073
esv3585591 CNV loss 21293372
nsv160265 CNV deletion 16902084
nsv473498 CNV novel sequence insertion 20440878
nsv509080 CNV insertion 20534489
nsv945857 CNV duplication 23825009

Variation tolerance for YTHDF2 Gene

Residual Variation Intolerance Score: 12.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.35; 26.67% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for YTHDF2 Gene

Human Gene Mutation Database (HGMD)
YTHDF2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
YTHDF2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YTHDF2 Gene

Disorders for YTHDF2 Gene

Relevant External Links for YTHDF2

Genetic Association Database (GAD)
YTHDF2
Human Genome Epidemiology (HuGE) Navigator
YTHDF2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
YTHDF2

No disorders were found for YTHDF2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for YTHDF2 Gene

Publications for YTHDF2 Gene

  1. Topology of the human and mouse m6A RNA methylomes revealed by m6A- seq. (PMID: 22575960) Dominissini D. … Rechavi G. (Nature 2012) 2 3 4 64
  2. Antigens recognized by autologous antibody in patients with renal- cell carcinoma. (PMID: 10508479) Scanlan M.J. … Old L.J. (Int. J. Cancer 1999) 2 3 4 64
  3. N(6)-methyladenosine modulates messenger RNA translation efficiency. (PMID: 26046440) Wang X. … He C. (Cell 2015) 3 4 64
  4. structural basis for the discriminative recognition of N6- methyladenosine RNA by the human YT521-B homology domain family of proteins. (PMID: 26318451) Xu C. … Min J. (J. Biol. Chem. 2015) 3 4 64
  5. Dynamic m(6)A mRNA methylation directs translational control of heat shock response. (PMID: 26458103) Zhou J. … Qian S.B. (Nature 2015) 3 4 64

Products for YTHDF2 Gene

Sources for YTHDF2 Gene

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