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Aliases for YTHDF3 Gene

Aliases for YTHDF3 Gene

  • YTH N6-Methyladenosine RNA Binding Protein 3 2 3 5
  • YTH N(6)-Methyladenosine RNA Binding Protein 3 2
  • YTH Domain Family, Member 3 2
  • YTH Domain Family 3 2

External Ids for YTHDF3 Gene

Previous GeneCards Identifiers for YTHDF3 Gene

  • GC08P064132
  • GC08P064243
  • GC08P064081
  • GC08P059569

Summaries for YTHDF3 Gene

Entrez Gene Summary for YTHDF3 Gene

  • This gene encodes a member of the YTH (YT521-B homology) domain protein family. The YTH domain is common in eukaryotes, is often found in the middle of the protein sequence, and may function in binding to RNA. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2013]

GeneCards Summary for YTHDF3 Gene

YTHDF3 (YTH N6-Methyladenosine RNA Binding Protein 3) 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 YTHDF1.

UniProtKB/Swiss-Prot for YTHDF3 Gene

  • Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs. 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.

Gene Wiki entry for YTHDF3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for YTHDF3 Gene

Genomics for YTHDF3 Gene

Regulatory Elements for YTHDF3 Gene

Enhancers for YTHDF3 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
GH08F063166 1.4 FANTOM5 ENCODE 12.4 -0.1 -130 4.0 HDGF PKNOX1 CREB3L1 MLX ARID4B SIN3A FEZF1 DMAP1 YY1 ZNF143 YTHDF3 YTHDF3-AS1 GC08P063153 GC08P063154 GC08P063155 GC08P063156 GC08P063157 GC08P063158 PIR39522
GH08F063032 1.1 FANTOM5 Ensembl ENCODE 10.5 -135.8 -135759 0.4 MAFG NFE2 NFE2L2 GGH YTHDF3 TTPA ENSG00000253121 GC08P063039
GH08F063172 0.4 Ensembl 0.8 +3.7 3748 0.2 MLLT1 YTHDF3 ENSG00000261542
GH08F063191 1 Ensembl ENCODE 0.3 +28.4 28448 10.8 EBF1 RELA GTF3C2 ZNF316 POLR2A CBX5 ZNF143 TRIM24 NFIA MTA2 YTHDF3-AS1 ENSG00000261542 YTHDF3
GH08F063205 0.2 Ensembl 0.3 +37.4 37448 0.8 ENSG00000261542 YTHDF3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around YTHDF3 on UCSC Golden Path with GeneCards custom track

Promoters for YTHDF3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001393139 647 4001 HDGF PKNOX1 CREB3L1 MLX ARID4B SIN3A FEZF1 DMAP1 YY1 ZNF143

Genomic Location for YTHDF3 Gene

Chromosome:
8
Start:
63,168,553 bp from pter
End:
63,212,788 bp from pter
Size:
44,236 bases
Orientation:
Plus strand

Genomic View for YTHDF3 Gene

Genes around YTHDF3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
YTHDF3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for YTHDF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YTHDF3 Gene

Proteins for YTHDF3 Gene

  • Protein details for YTHDF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7Z739-YTHD3_HUMAN
    Recommended name:
    YTH domain-containing family protein 3
    Protein Accession:
    Q7Z739
    Secondary Accessions:
    • B3KXL4
    • Q63Z37
    • Q659A3

    Protein attributes for YTHDF3 Gene

    Size:
    585 amino acids
    Molecular mass:
    63861 Da
    Quaternary structure:
    No Data Available

neXtProt entry for YTHDF3 Gene

Post-translational modifications for YTHDF3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for YTHDF3 Gene

Domains & Families for YTHDF3 Gene

Protein Domains for YTHDF3 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for YTHDF3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q7Z739

UniProtKB/Swiss-Prot:

YTHD3_HUMAN :
  • Contains 1 YTH domain.
Domain:
  • Contains 1 YTH domain.
genes like me logo Genes that share domains with YTHDF3: view

No data available for Gene Families for YTHDF3 Gene

Function for YTHDF3 Gene

Molecular function for YTHDF3 Gene

UniProtKB/Swiss-Prot Function:
Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs. 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.
UniProtKB/Swiss-Prot Induction:
Following heat shock stress.

Gene Ontology (GO) - Molecular Function for YTHDF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 22190034
GO:0044822 poly(A) RNA binding IDA 22681889
GO:1990247 N6-methyladenosine-containing RNA binding IDA 22575960
genes like me logo Genes that share ontologies with YTHDF3: view
genes like me logo Genes that share phenotypes with YTHDF3: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YTHDF3 Gene

Localization for YTHDF3 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for YTHDF3 Gene

Pathways & Interactions for YTHDF3 Gene

SuperPathways for YTHDF3 Gene

No Data Available

Interacting Proteins for YTHDF3 Gene

Gene Ontology (GO) - Biological Process for YTHDF3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for YTHDF3 Gene

Transcripts for YTHDF3 Gene

Unigene Clusters for YTHDF3 Gene

YTH domain family, member 3:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for YTHDF3 Gene

No ASD Table

Relevant External Links for YTHDF3 Gene

GeneLoc Exon Structure for
YTHDF3
ECgene alternative splicing isoforms for
YTHDF3

Expression for YTHDF3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for YTHDF3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for YTHDF3 Gene

This gene is overexpressed in Bone (32.8) and Fetal Brain (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for YTHDF3 Gene



Protein tissue co-expression partners for YTHDF3 Gene

NURSA nuclear receptor signaling pathways regulating expression of YTHDF3 Gene:

YTHDF3

SOURCE GeneReport for Unigene cluster for YTHDF3 Gene:

Hs.491861
genes like me logo Genes that share expression patterns with YTHDF3: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for YTHDF3 Gene

Orthologs for YTHDF3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for YTHDF3 Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia YTHDF3 34 35
  • 97.83 (n)
mouse
(Mus musculus)
Mammalia Ythdf3 34 16 35
  • 96.41 (n)
rat
(Rattus norvegicus)
Mammalia Ythdf3 34
  • 96.24 (n)
cow
(Bos Taurus)
Mammalia YTHDF3 34 35
  • 95.38 (n)
oppossum
(Monodelphis domestica)
Mammalia YTHDF3 35
  • 95 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia YTHDF3 35
  • 92 (a)
OneToOne
chicken
(Gallus gallus)
Aves YTHDF3 34 35
  • 88.45 (n)
lizard
(Anolis carolinensis)
Reptilia YTHDF3 35
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ythdf3 34
  • 83.97 (n)
Str.8934 34
zebrafish
(Danio rerio)
Actinopterygii ythdf3 34 35
  • 73 (n)
-- 34
fruit fly
(Drosophila melanogaster)
Insecta CG6422 35
  • 28 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes -- 35
  • 30 (a)
OneToMany
barley
(Hordeum vulgare)
Liliopsida Hv.5568 34
wheat
(Triticum aestivum)
Liliopsida Ta.9583 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6332 35
  • 43 (a)
OneToMany
Species where no ortholog for YTHDF3 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)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chimpanzee (Pan troglodytes)
  • 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 (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)
  • worm (Caenorhabditis elegans)

Evolution for YTHDF3 Gene

ENSEMBL:
Gene Tree for YTHDF3 (if available)
TreeFam:
Gene Tree for YTHDF3 (if available)

Paralogs for YTHDF3 Gene

Paralogs for YTHDF3 Gene

genes like me logo Genes that share paralogs with YTHDF3: view

Variants for YTHDF3 Gene

Sequence variations from dbSNP and Humsavar for YTHDF3 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs10088859 -- 63,202,005(+) CTTTT(C/T)TTAAC intron-variant
rs10099778 -- 63,180,136(+) tctca(A/G)atggg intron-variant
rs10108265 -- 63,203,466(+) Atttt(A/T)aaaaa intron-variant
rs10110931 -- 63,179,297(+) AATAG(C/G/T)GCAGG intron-variant
rs10112440 -- 63,176,526(+) CCGCC(C/T)GCCTC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for YTHDF3 Gene

Variant ID Type Subtype PubMed ID
nsv831342 CNV gain 17160897
esv3617425 CNV gain 21293372
esv3617424 CNV loss 21293372
esv2677763 CNV deletion 23128226

Variation tolerance for YTHDF3 Gene

Gene Damage Index Score: 1.64; 31.46% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for YTHDF3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
YTHDF3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YTHDF3 Gene

Disorders for YTHDF3 Gene

Relevant External Links for YTHDF3

Genetic Association Database (GAD)
YTHDF3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
YTHDF3

No disorders were found for YTHDF3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for YTHDF3 Gene

Publications for YTHDF3 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. N-methyladenosine-dependent regulation of messenger RNA stability. (PMID: 24284625) Wang X. … He C. (Nature 2014) 3 4 64
  3. Initial characterization of the human central proteome. (PMID: 21269460) Burkard T.R. … Colinge J. (BMC Syst. Biol. 2011) 3 4 64
  4. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PMID: 20068231) Olsen J.V. … Mann M. (Sci. Signal. 2010) 3 4 64
  5. A quantitative atlas of mitotic phosphorylation. (PMID: 18669648) Dephoure N. … Gygi S.P. (Proc. Natl. Acad. Sci. U.S.A. 2008) 3 4 64

Products for YTHDF3 Gene

Sources for YTHDF3 Gene

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