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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).

No data available for Entrez Gene 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
GH20F063191 1.3 FANTOM5 ENCODE 12.4 +24.7 24659 0.2 GTF2F1 KLF1 MXI1 STAT1 CEBPB KLF17 MAX USF2 EP300 SMC3 BIRC7 YTHDF1 GC20P063194 GC20P063186
GH20F063566 1 Ensembl ENCODE 4.6 -352.1 -352061 2.6 CTCF ESRRA MXI1 TBL1XR1 CHD4 MAX RELA ZKSCAN1 HIC1 EGR1 UCKL1 GMEB2 RTEL1 YTHDF1 GC20M063568 PIR35506 PIR55174
GH20F063014 1.1 FANTOM5 Ensembl ENCODE 2.7 +201.3 201275 1.3 KLF1 TEAD4 KLF17 MNT ZFHX2 SMARCA4 POLR2A EGR1 FOS FOXP2 YTHDF1 GC20P063014 LOC105372718
GH20F063536 1.1 FANTOM5 ENCODE 1.3 -321.6 -321557 3.4 HDGF PKNOX1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 PPDPF PRPF6 PTK6 CICP4 FNDC11 SRMS SAMD10 UCKL1 YTHDF1 ENSG00000275812
GH20F063214 0.6 ENCODE 0.8 +0.1 94 3.7 HDGF CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 BIRC7 ENSG00000231977 ARFGAP1 YTHDF1 GC20P063194
- Elite enhancer/Elite enhancer-gene association Download Table
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
ENSR00000404297 234 1601 HDGF CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9

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. Interacts with eIF3 (EIF3A or EIF3B).

    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

Protein Domains for YTHDF1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for YTHDF1 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BYJ9

UniProtKB/Swiss-Prot:

YTHD1_HUMAN :
  • Contains 1 YTH domain.
Domain:
  • Contains 1 YTH domain.
genes like me logo Genes that share domains with YTHDF1: view

No data available for Gene Families 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).

Gene Ontology (GO) - Molecular Function for YTHDF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043022 ribosome binding IDA 26046440
GO:0044822 poly(A) RNA binding IDA 22658674
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

miRNA for YTHDF1 Gene

miRTarBase miRNAs that target YTHDF1

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 YTHDF1 Gene

Localization for YTHDF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YTHDF1 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for YTHDF1 Gene COMPARTMENTS Subcellular localization image for YTHDF1 gene
Compartment Confidence
cytosol 2
nucleus 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

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: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

Transcripts for YTHDF1 Gene

mRNA/cDNA for YTHDF1 Gene

Unigene Clusters for YTHDF1 Gene

YTH domain family, member 1:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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 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
genes like me logo Genes that share expression patterns with YTHDF1: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt 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 34 35
  • 98.51 (n)
oppossum
(Monodelphis domestica)
Mammalia YTHDF1 35
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia YTHDF1 35
  • 89 (a)
OneToOne
dog
(Canis familiaris)
Mammalia YTHDF1 34 35
  • 88.25 (n)
mouse
(Mus musculus)
Mammalia Ythdf1 34 16 35
  • 88.07 (n)
rat
(Rattus norvegicus)
Mammalia Ythdf1 34
  • 88.07 (n)
cow
(Bos Taurus)
Mammalia YTHDF1 34 35
  • 84.62 (n)
chicken
(Gallus gallus)
Aves YTHDF1 34 35
  • 80.38 (n)
lizard
(Anolis carolinensis)
Reptilia YTHDF1 35
  • 86 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ythdf1 34
  • 78.25 (n)
MGC75606 34
African clawed frog
(Xenopus laevis)
Amphibia MGC68505 34
zebrafish
(Danio rerio)
Actinopterygii ythdf1 34 35
  • 72.74 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG6422 35
  • 27 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes -- 35
  • 28 (a)
OneToMany
rice
(Oryza sativa)
Liliopsida Os.7188 34
wheat
(Triticum aestivum)
Liliopsida Ta.7012 34
corn
(Zea mays)
Liliopsida Zm.13185 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6332 35
  • 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
rs1044505 -- 63,196,383(-) TATTC(G/T)GTGAG utr-variant-3-prime
rs111565320 -- 63,205,539(+) GTCTC(-/A)ACTTT intron-variant
rs111620001 -- 63,209,661(+) GCTGC(A/G)ATGAG intron-variant
rs111865637 -- 63,211,271(+) ACCAG(C/G)CTGGG intron-variant
rs111867932 -- 63,197,736(+) GACCC(C/T)ATCTC intron-variant

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. N-methyladenosine-dependent regulation of messenger RNA stability. (PMID: 24284625) Wang X. … He C. (Nature 2014) 2 3 4 64
  2. N(6)-methyladenosine modulates messenger RNA translation efficiency. (PMID: 26046440) Wang X. … He C. (Cell 2015) 3 4 64
  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. (J. Biol. Chem. 2015) 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for YTHDF1 Gene

Sources for YTHDF1 Gene

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