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    YTHDF1 YTH N6-methyladenosine RNA binding protein F1 [ Homo sapiens (human) ]

    Gene ID: 54915, updated on 3-Dec-2024

    Summary

    Official Symbol
    YTHDF1provided by HGNC
    Official Full Name
    YTH N6-methyladenosine RNA binding protein F1provided by HGNC
    Primary source
    HGNC:HGNC:15867
    See related
    Ensembl:ENSG00000149658 MIM:616529; AllianceGenome:HGNC:15867
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    DF1; C20orf21
    Summary
    Enables N6-methyladenosine-containing RNA reader activity and ribosome binding activity. Involved in mRNA destabilization; positive regulation of translational initiation; and stress granule assembly. Located in P-body and cytoplasmic stress granule. Implicated in colorectal cancer. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 18.6), bone marrow (RPKM 15.2) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See YTHDF1 in Genome Data Viewer
    Location:
    20q13.33
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (63195429..63216131, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (65000752..65021443, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (61826781..61847483, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904952 Neighboring gene MPRA-validated peak4310 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61799372-61800146 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61803896-61804472 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61804473-61805047 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61805624-61806198 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61809099-61810059 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13147 Neighboring gene microRNA 124-3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61818311-61818811 Neighboring gene Sharpr-MPRA regulatory region 12386 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61830673-61831272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61831273-61831874 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13148 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13149 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61857740-61858694 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61862252-61863021 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:61863095-61864294 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:61865058-61865253 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61866073-61866674 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18225 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61870596-61871096 Neighboring gene uncharacterized LOC124904950 Neighboring gene baculoviral IAP repeat containing 7 Neighboring gene microRNA 3196 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61879175-61880007 Neighboring gene sodium/potassium transporting ATPase interacting 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61880008-61880839

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Discovery of genetic biomarkers contributing to variation in drug response of cytidine analogues using human lymphoblastoid cell lines.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ20391

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables N6-methyladenosine-containing RNA reader activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables N6-methyladenosine-containing RNA reader activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables RNA binding HDA PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables ribosome binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in learning ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in mRNA destabilization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA destabilization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in memory ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in organelle assembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of translation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    NOT involved_in positive regulation of translational initiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of translational initiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of antigen processing and presentation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of long-term synaptic potentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of mRNA stability IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in stress granule assembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    YTH domain-containing family protein 1
    Names
    DACA-1
    YTH N(6)-methyladenosine RNA binding protein 1
    YTH N6-methyladenosine RNA binding protein 1
    YTH domain family 1
    YTH domain family protein 1
    YTH domain family, member 1
    dermatomyositis associated with cancer putative autoantigen 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_017798.4NP_060268.2  YTH domain-containing family protein 1

      See identical proteins and their annotated locations for NP_060268.2

      Status: VALIDATED

      Source sequence(s)
      BC003681, BC050284
      Consensus CDS
      CCDS13511.1
      UniProtKB/Swiss-Prot
      Q8N3G5, Q8TBT1, Q96AN4, Q96S57, Q9BTI7, Q9BYJ9, Q9NX79
      UniProtKB/TrEMBL
      B3KTL8
      Related
      ENSP00000359364.3, ENST00000370339.8
      Conserved Domains (3) summary
      pfam04146
      Location:390523
      YTH; YT521-B-like domain
      cl09930
      Location:258311
      RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
      cl26464
      Location:227364
      Atrophin-1; Atrophin-1 family

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      63195429..63216131 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_024451914.2XP_024307682.1  YTH domain-containing family protein 1 isoform X1

      UniProtKB/TrEMBL
      B4DT65
      Conserved Domains (3) summary
      pfam04146
      Location:340473
      YTH; YT521-B-like domain
      cl09930
      Location:208261
      RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
      cl26464
      Location:177314
      Atrophin-1; Atrophin-1 family

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      65000752..65021443 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054323556.1XP_054179531.1  YTH domain-containing family protein 1 isoform X1

      UniProtKB/TrEMBL
      B4DT65