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Aliases for YTHDF1 Gene

Aliases for YTHDF1 Gene

  • YTH N6-Methyladenosine RNA Binding Protein 1 2 3 5
  • Dermatomyositis Associated With Cancer Putative Autoantigen 1 3 4
  • YTH N(6)-Methyladenosine RNA Binding Protein 1 2 3
  • YTH Domain Family, Member 1 2 3
  • YTH Domain Family 1 2 3
  • C20orf21 3 4
  • DACA-1 3 4
  • YTH Domain-Containing Family Protein 1 3
  • YTH Domain Family Protein 1 3

External Ids for YTHDF1 Gene

Previous HGNC Symbols for YTHDF1 Gene

  • C20orf21

Previous GeneCards Identifiers for YTHDF1 Gene

  • GC20M062554
  • GC20M061297
  • GC20M061826
  • GC20M058551

Summaries for YTHDF1 Gene

GeneCards Summary for YTHDF1 Gene

YTHDF1 (YTH N6-Methyladenosine RNA Binding Protein 1) 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 YTHDF1 Gene

  • Specifically recognizes and binds N6-methyladenosine (m6A)-containing mRNAs, and promotes mRNA translation efficiency (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:24284625). Acts as a regulator of mRNA translation efficiency: promotes ribosome loading to m6A-containing mRNAs and interacts with translation initiation factors eIF3 (EIF3A or EIF3B) to facilitate translation initiation (PubMed:26046440).

Additional gene information for YTHDF1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for YTHDF1 Gene

Genomics for YTHDF1 Gene

Regulatory Elements for YTHDF1 Gene

Enhancers for YTHDF1 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
GH20H063694 1.5 Ensembl ENCODE dbSUPER 20.3 -481.5 -481527 7 HNRNPUL1 MLX GLIS2 ZNF207 FOS RUNX3 PAF1 SP3 SP5 MXD4 RTEL1 DIDO1 LIME1 CICP4 PRPF6 GMEB2 UCKL1 YTHDF1 MIR647 SLC2A4RG
GH20H062352 2 FANTOM5 Ensembl ENCODE dbSUPER 12.4 +854.1 854119 19 HDGF FOXA2 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B LAMA5 LAMA5-AS1 ARFGAP1 YTHDF1 MTG2 CABLES2 OSBPL2 BHLHE23 MRGBP ADRM1
GH20H062793 1.8 FANTOM5 ENCODE dbSUPER 13.3 +420.4 420409 4 HDGF MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZBTB7B YY1 SLC30A9 OGFR DIDO1 YTHDF1 RPS21 LSM14B LAMA5 MRGBP RTEL1 SS18L1 DPH3P1
GH20H063845 1.6 Ensembl ENCODE dbSUPER 14 -631.1 -631093 3 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A YBX1 FEZF1 DMAP1 ZBTB7B DIDO1 MIR647 UCKL1 PCMTD2 TNFRSF6B RTEL1 ZNF512B PRPF6 ENSG00000237371 CICP4
GH20H062649 1.8 FANTOM5 ENCODE dbSUPER 11.4 +564.1 564143 4 HDGF FOXA2 PKNOX1 MLX ARID4B SIN3A FEZF1 DMAP1 ZBTB7B YY1 OGFR YTHDF1 OGFR-AS1 MTG2 MIR1-1 C20orf166-AS1 MIR1-1HG DIDO1 OSBPL2 DPH3P1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around YTHDF1 on UCSC Golden Path with GeneCards custom track

Promoters for YTHDF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000139863 234 1601 HDGF PKNOX1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1

Genomic Location for YTHDF1 Gene

Chromosome:
20
Start:
63,195,429 bp from pter
End:
63,216,234 bp from pter
Size:
20,806 bases
Orientation:
Minus strand

Genomic View for YTHDF1 Gene

Genes around YTHDF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
YTHDF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for YTHDF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YTHDF1 Gene

Proteins for YTHDF1 Gene

  • Protein details for YTHDF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BYJ9-YTHD1_HUMAN
    Recommended name:
    YTH domain-containing family protein 1
    Protein Accession:
    Q9BYJ9
    Secondary Accessions:
    • Q8N3G5
    • Q8TBT1
    • Q96AN4
    • Q96S57
    • Q9BTI7
    • Q9NX79

    Protein attributes for YTHDF1 Gene

    Size:
    559 amino acids
    Molecular mass:
    60874 Da
    Quaternary structure:
    • Interacts with ribosomes (PubMed:26046440). Interacts with eIF3 (EIF3A or EIF3B) (PubMed:26046440). Interacts with YTHDF3 (PubMed:28106072).

    Three dimensional structures from OCA and Proteopedia for YTHDF1 Gene

    Alternative splice isoforms for YTHDF1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for YTHDF1 Gene

Post-translational modifications for YTHDF1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for YTHDF1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for YTHDF1 Gene

Domains & Families for YTHDF1 Gene

Gene Families for YTHDF1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for YTHDF1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for YTHDF1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with YTHDF1: view

No data available for UniProtKB/Swiss-Prot for YTHDF1 Gene

Function for YTHDF1 Gene

Molecular function for YTHDF1 Gene

UniProtKB/Swiss-Prot Function:
Specifically recognizes and binds N6-methyladenosine (m6A)-containing mRNAs, and promotes mRNA translation efficiency (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:24284625). Acts as a regulator of mRNA translation efficiency: promotes ribosome loading to m6A-containing mRNAs and interacts with translation initiation factors eIF3 (EIF3A or EIF3B) to facilitate translation initiation (PubMed:26046440).

Phenotypes From GWAS Catalog for YTHDF1 Gene

Gene Ontology (GO) - Molecular Function for YTHDF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22658674
GO:0005515 protein binding IPI 28106072
GO:0043022 ribosome binding IDA 26046440
GO:1990247 N6-methyladenosine-containing RNA binding IDA 24284625
genes like me logo Genes that share ontologies with YTHDF1: view
genes like me logo Genes that share phenotypes with YTHDF1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for YTHDF1

CRISPR Products

miRNA for YTHDF1 Gene

miRTarBase miRNAs that target YTHDF1

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for YTHDF1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YTHDF1 Gene

Localization for YTHDF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YTHDF1 Gene

Cytoplasm.

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 YTHDF1 gene
Compartment Confidence
nucleus 2
cytosol 2

Gene Ontology (GO) - Cellular Components for YTHDF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with YTHDF1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for YTHDF1 Gene

Pathways & Interactions for YTHDF1 Gene

SuperPathways for YTHDF1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YTHDF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0045727 positive regulation of translation IMP 28106072
GO:0045948 positive regulation of translational initiation IDA 26046440
genes like me logo Genes that share ontologies with YTHDF1: view

No data available for Pathways by source and SIGNOR curated interactions for YTHDF1 Gene

Drugs & Compounds for YTHDF1 Gene

No Compound Related Data Available

Transcripts for YTHDF1 Gene

mRNA/cDNA for YTHDF1 Gene

Unigene Clusters for YTHDF1 Gene

YTH domain family, member 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for YTHDF1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for YTHDF1 Gene

No ASD Table

Relevant External Links for YTHDF1 Gene

GeneLoc Exon Structure for
YTHDF1
ECgene alternative splicing isoforms for
YTHDF1

Expression for YTHDF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for YTHDF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for YTHDF1 Gene

This gene is overexpressed in Lung (30.0) and Breast (18.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for YTHDF1 Gene



Protein tissue co-expression partners for YTHDF1 Gene

NURSA nuclear receptor signaling pathways regulating expression of YTHDF1 Gene:

YTHDF1

SOURCE GeneReport for Unigene cluster for YTHDF1 Gene:

Hs.744852

Evidence on tissue expression from TISSUES for YTHDF1 Gene

  • Intestine(4.3)
  • Nervous system(2.9)
genes like me logo Genes that share expression patterns with YTHDF1: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for YTHDF1 Gene

Orthologs for YTHDF1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for YTHDF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia YTHDF1 33 34
  • 98.51 (n)
oppossum
(Monodelphis domestica)
Mammalia YTHDF1 34
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia YTHDF1 34
  • 89 (a)
OneToOne
dog
(Canis familiaris)
Mammalia YTHDF1 33 34
  • 88.25 (n)
mouse
(Mus musculus)
Mammalia Ythdf1 33 16 34
  • 88.07 (n)
rat
(Rattus norvegicus)
Mammalia Ythdf1 33
  • 88.07 (n)
cow
(Bos Taurus)
Mammalia YTHDF1 33 34
  • 84.62 (n)
chicken
(Gallus gallus)
Aves YTHDF1 33 34
  • 80.38 (n)
lizard
(Anolis carolinensis)
Reptilia YTHDF1 34
  • 86 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ythdf1 33
  • 78.25 (n)
MGC75606 33
African clawed frog
(Xenopus laevis)
Amphibia MGC68505 33
zebrafish
(Danio rerio)
Actinopterygii ythdf1 33 34
  • 72.74 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG6422 34
  • 27 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes -- 34
  • 28 (a)
OneToMany
rice
(Oryza sativa)
Liliopsida Os.7188 33
wheat
(Triticum aestivum)
Liliopsida Ta.7012 33
corn
(Zea mays)
Liliopsida Zm.13185 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6332 34
  • 42 (a)
OneToMany
Species where no ortholog for YTHDF1 was found in the sources mined by GeneCards:
  • 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for YTHDF1 Gene

ENSEMBL:
Gene Tree for YTHDF1 (if available)
TreeFam:
Gene Tree for YTHDF1 (if available)

Paralogs for YTHDF1 Gene

Paralogs for YTHDF1 Gene

(4) SIMAP similar genes for YTHDF1 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with YTHDF1: view

Variants for YTHDF1 Gene

Sequence variations from dbSNP and Humsavar for YTHDF1 Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type
rs1000055964 -- 63,212,007(+) CACAC(A/T)CTTTT intron-variant
rs1000129100 -- 63,213,061(+) ACTAC(A/T)CTCTC intron-variant
rs1000232959 -- 63,217,792(+) GTCTG(C/T)CTTCT upstream-variant-2KB
rs1000487122 -- 63,194,986(+) TGGGC(C/T)GAGGC downstream-variant-500B
rs1000570267 -- 63,216,527(+) GCTAC(G/T)GGTCT upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for YTHDF1 Gene

Variant ID Type Subtype PubMed ID
dgv519n27 CNV loss 19166990
dgv68n68 CNV loss 17160897
dgv7664n54 CNV loss 21841781
esv2722892 CNV deletion 23290073
nsv1149422 CNV insertion 26484159
nsv527884 CNV loss 19592680
nsv586559 CNV gain 21841781
nsv828798 CNV loss 20364138
nsv834031 CNV loss 17160897
nsv834032 CNV loss 17160897
nsv953306 CNV deletion 24416366
nsv9825 CNV gain 18304495

Variation tolerance for YTHDF1 Gene

Residual Variation Intolerance Score: 24.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.25; 52.67% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for YTHDF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
YTHDF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YTHDF1 Gene

Disorders for YTHDF1 Gene

Relevant External Links for YTHDF1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
YTHDF1

No disorders were found for YTHDF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for YTHDF1 Gene

Publications for YTHDF1 Gene

  1. N6-methyladenosine-dependent regulation of messenger RNA stability. (PMID: 24284625) Wang X … He C (Nature 2014) 2 3 4 60
  2. 6 (PMID: 28106072) Shi H … He C (Cell research 2017) 3 4 60
  3. 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 (The Journal of biological chemistry 2015) 3 4 60
  4. N(6)-methyladenosine Modulates Messenger RNA Translation Efficiency. (PMID: 26046440) Wang X … He C (Cell 2015) 3 4 60
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60

Products for YTHDF1 Gene

Sources for YTHDF1 Gene

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