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YTHDF1 Gene

protein-coding   GIFtS: 46

GC20M061297
YTH domain family, member 1
(Previous name: YTH domain family 1 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: C20orf21)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
C20orf21 2, 3
DACA-1 3
FLJ20391 1, 2
OTTHUMP00000031533 2
Descriptions
Dermatomyositis associated with cancer putative autoantigen
1 3
YTH domain family 1 1, 2
YTH domain family, member 1 2
External Ids
HGNC: 158671
Entrez Gene: 549152
UniProtKB: Q9BYJ93
Ensembl: ENSG000001496587
Search outside databases for aliases for YTHDF1 gene

Previous GC identifer: GC20M062554

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

  --
(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the YTHDF1 gene  

Entrez Gene cytogenetic band: 20q13.33   Ensembl cytogenetic band:  20q13.33   HGNC cytogenetic band: 20q13.33

YTHDF1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M061297:     (about GC identifiers)

Start:
61,297,226 bp from pter
End:
61,318,031 bp from pter
Size:
20,806 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000020.9  NT_011333.5  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: YTHD1_HUMAN, Q9BYJ9 (See protein sequence)
Recommended Name: YTH domain family protein 1  
Size: 559 amino acids; 60874 Da
Secondary accessions: Q8N3G5 Q8TBT1 Q96AN4 Q96S57 Q9BTI7 Q9NX79
Alternative splicing: 2 isoforms:  Q9BYJ9-1   Q9BYJ9-2   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_060268.2  

    ENSEMBL proteins: 
    ENSP00000359364 ENSP00000359359 ENSP00000339489 ENSP00000359358 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (YTHD1)
    Human Recombinant Proteins from Abnova (YTHDF1)
                  OriGene Purified Recombinant Human Protein: YTHDF1 


    Antibodies for YTHDF1: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (YTHD1), each with their AbpromiseSM
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for YTHDF1

    Assays for YTHDF1: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    1 InterPro domain/family:
     IPR007275 YTH


       GeneDecks  YTHDF1 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q9BYJ9

    ProtoNet protein and cluster: Q9BYJ9

    1 Blocks protein family: IPB007275 YT521-B-like protein

    UniProtKB/Swiss-Prot: YTHD1_HUMAN, Q9BYJ9
    Similarity: Contains 1 YTH domain

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (YTHDF1)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_017798

                  Applied Biosystems Silencer® siRNAs for YTHDF1

                  Sigma-Aldrich siRNA for YTHDF1  
                         Sigma-Aldrich shRNA for YTHDF1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for YTHDF1
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_017798
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_017798
                                     untagged cDNA clones in CMV expression vector (see all 2): AK095795 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_017798

    1 MGI phenotypic allele for Ythdf1 (no phenotypes)

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


      --
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for YTHDF1

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (YTHDF1)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_017798

                  Sigma-Aldrich siRNA for YTHDF1  
                         Sigma-Aldrich shRNA for YTHDF1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_017798  

    REFSEQ mRNAs for YTHDF1 gene: 

    NM_017798.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_017798  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_017798
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_017798
                                     untagged cDNA clones in CMV expression vector (see all 2): AK095795 

    Additional cDNA sequence: 

    AB055518.1 AK000398.1 AK024546.1 AK095795.1 AK300073.1 AL834366.1 BC003681.1 BC016920.2 
    BC025264.1 BC050284.1 CR594400.1 

    9 DOTS entries:

    DT.91802563  DT.95289733  DT.120833622  DT.102831513  DT.95289731  DT.95289734  DT.99994499  DT.100027658 
    DT.95289732 

    24/237 AceView cDNA sequences (see all 237 ):

    AI421444 AL550164 CD673219 AV729447 AV729585 AI207174 BM194314 BM745209 
    AI421386 AA405564 AI553931 BF818964 BF196729 CR594400 CA311646 BM743244 
    CB529952 AW075266 NM_017798 AA301454 AW769250 AB055518 AV725141 AI078340 

    highest scoring ESTs for YTHDF1:

    AK095795 AL514504 AL526609 AW001012 BC050284 BI562443 CB960283 CB961972 CB988619 AA099708 

    Unigene Cluster for YTHDF1:

    YTH domain family, member 1
    Hs.11747  [show with all ESTs]
    Unigene Representative Sequence: NM_017798


    GeneLoc Exon Structure

    4 Ensembl transcripts including schematic representations:
    ENST00000370339  ENST00000370334  ENST00000342761  ENST00000370333  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    YTHDF1 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for YTHDF1

    1 / 2 / 3

    3 probe-sets matching YTHDF1 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    56516_at2, 3 U95-B 1 1.00 1.00 1.00 1.00 AW001012 0.80 1.00 0.91 1

    221741_s_at2 U133-A 1 1.00 1.00 -- -- -- -- -- -- --

    221741_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: CCTGACGCTC

    SOURCE GeneReport for Unigene cluster: Hs.11747
    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for YTHDF1 gene from 5/13 species (see all 13 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    YTHDF11   -- YTH domain family, member 1 88.6(n)
    92.98(a)
    485968  XM_543093.2  XP_543093.2 
    chimpanzee
    (Pan troglodytes)
    YTHDF11   -- YTH domain family, member 1 99.64(n)
    99.64(a)
    470035  XM_525419.2  XP_525419.2 
    cow
    (Bos taurus)
    YTHDF11   -- YTH domain family, member 1 84.48(n)
    88.73(a)
    538525  XM_580915.3  XP_580915.3 
    rat
    (Rattus norvegicus)
    Ythdf11   -- YTH domain family, member 1 88.07(n)
    93.74(a)
    296467  NM_001024756.1  NP_001019927.1 
    mouse
    (Mus musculus)
    Ythdf11, 5 25
    YTH domain family 11, 5 88.07(n)1
    93.92(a)1
    2289941  NM_173761.31  NP_776122.11 
     AA4269885  AK0332415  (see all 16)
    About this table        Species with no ortholog for YTHDF1

    ENSEMBL Gene Tree for YTHDF1
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for YTHDF1 gene
    YTHDF22  YTHDF32  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/139 NCBI SNPs in YTHDF1 are shown (see all 139 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 60)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 20 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    --
    rs60116691,2
    A,C,F,H61319908(+) AGTGCC/GGGCAA 1 -- ng314Minor allele frequency- G:0.34EU EA WA 412
    rs60902891,2
    A,C,F,H61296969(+) AGTCCA/GGAAAG 1 -- ng5111Minor allele frequency- G:0.38EU EA WA NA 960
    rs60116681,2
    A,C,F,H61319068(+) TGGGGC/TAGCAG 1 -- ng314Minor allele frequency- T:0.28EU EA WA 416
    rs60902881,2
    F,H61296812(+) TCACAT/CACTTG 1 -- ng514Minor allele frequency- C:0.05EU EA WA 420
    rs60116591,2
    F,H61297723(+) AAGACG/AGCATT 1 -- ut314Minor allele frequency- A:0.01EU EA WA 420
    rs60108711,2
    H61298064(+) TTAACC/TTTTTG 1 -- ut31 ese34Minor allele frequency- T:0.00EU EA WA 396
    rs60108691,2
    H61297802(+) CAGACC/TTAAAG 1 -- ut314Minor allele frequency- T:0.00EU EA WA 420
    rs60902901,2
    H61297069(+) CTTAAG/AGAAAT 1 -- ng514Minor allele frequency- A:0.00EU EA WA 420
    rs61223921,2
    H61297912(+) TGGAAG/AGAAAG 1 -- ut31 trp34Minor allele frequency- A:0.00EU EA WA 418
    rs61221031,2
    A,C,F,H61305140(+) TTGACG/AGCGGA 1 A/A syn17Minor allele frequency- A:0.33EU EA WA NA 550
    About this table

    HapMap Linkage Disequilibrium images for YTHDF1 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

      --

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    5 PubMed articles for YTHDF1 gene:
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 54915 HGNC: 15867 AceView: YTHDF1 Ensembl:ENSG00000149658 euGenes: HUgn54915
    ECgene: YTHDF1 H-InvDB: YTHDF1
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for YTHDF1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
      Invitrogen Antibodies  Invitrogen Assays
      Invitrogen Clones  Invitrogen Q-PCR Products
      Invitrogen Human Recombinant Kinases  Invitrogen Custom Antibody and Peptide Service
      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for YTHDF1-related products

     Millipore Custom Antibody & Bulk Services
     Millipore Preclinical / Clinical Development Services
     Millipore Immunoassay Services
     Millipore Target Screening & Profiling Services


     Predesigned and custom siRNAs for YTHDF1 Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for YTHDF1 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Recombinant Proteins
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     Tagged/untagged cDNA clones
     Validated SYBR primer pairs
     Purified proteins from HEK293T cells
     Western blot validated antibodies
     shRNA in GFP-retroviral vector
     Search Tocris compounds for YTHDF1




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Search Novus for antibodies for YTHDF1

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