Human Gene YTHDF1 (ENST00000370339.8_7) from GENCODE V47lift37
  Description: YTH N6-methyladenosine RNA binding protein 1 (from RefSeq NM_017798.4)
Gencode Transcript: ENST00000370339.8_7
Gencode Gene: ENSG00000149658.18_9
Transcript (Including UTRs)
   Position: hg19 chr20:61,826,781-61,847,483 Size: 20,703 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr20:61,828,060-61,847,244 Size: 19,185 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:61,826,781-61,847,483)mRNA (may differ from genome)Protein (559 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: YTHD1_HUMAN
DESCRIPTION: RecName: Full=YTH domain family protein 1; AltName: Full=Dermatomyositis associated with cancer putative autoantigen 1; Short=DACA-1;
SIMILARITY: Contains 1 YTH domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 25.77 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 819.91 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -129.80239-0.543 Picture PostScript Text
3' UTR -304.301279-0.238 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR007275 - YTH_domain

Pfam Domains:
PF04146 - YT521-B-like domain

SCOP Domains:
81995 - beta-sandwich domain of Sec23/24

ModBase Predicted Comparative 3D Structure on Q9BYJ9
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0043022 ribosome binding
GO:1990247 N6-methyladenosine-containing RNA binding

Biological Process:
GO:0045727 positive regulation of translation
GO:0045948 positive regulation of translational initiation

Cellular Component:
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK024546 - Homo sapiens cDNA: FLJ20893 fis, clone ADKA03459.
AB055518 - Homo sapiens DACA-1 mRNA for dermatomyositis associated with cancer putative autoantigen-1, partial cds.
AK000398 - Homo sapiens cDNA FLJ20391 fis, clone KAIA4640.
BC016920 - Homo sapiens YTH domain family, member 1, mRNA (cDNA clone IMAGE:3853372), partial cds.
BC003681 - Homo sapiens YTH domain family, member 1, mRNA (cDNA clone IMAGE:3453235), partial cds.
BC050284 - Homo sapiens YTH domain family, member 1, mRNA (cDNA clone MGC:41808 IMAGE:5298438), complete cds.
AK095795 - Homo sapiens cDNA FLJ38476 fis, clone FEBRA2022504, highly similar to YTH domain protein 1.
AL834366 - Homo sapiens mRNA; cDNA DKFZp762G1112 (from clone DKFZp762G1112).
JD566628 - Sequence 547652 from Patent EP1572962.
JD514632 - Sequence 495656 from Patent EP1572962.
JD333842 - Sequence 314866 from Patent EP1572962.
JD341228 - Sequence 322252 from Patent EP1572962.
JD227857 - Sequence 208881 from Patent EP1572962.
JD079168 - Sequence 60192 from Patent EP1572962.
JD471135 - Sequence 452159 from Patent EP1572962.
JD182892 - Sequence 163916 from Patent EP1572962.
JD295804 - Sequence 276828 from Patent EP1572962.
BC025264 - Homo sapiens YTH domain family, member 1, mRNA (cDNA clone IMAGE:5087992), partial cds.
AK300073 - Homo sapiens cDNA FLJ58619 complete cds, highly similar to YTH domain protein 1.
JD256095 - Sequence 237119 from Patent EP1572962.
JD377217 - Sequence 358241 from Patent EP1572962.
KJ894085 - Synthetic construct Homo sapiens clone ccsbBroadEn_03479 YTHDF1 gene, encodes complete protein.
JD436771 - Sequence 417795 from Patent EP1572962.
JD405586 - Sequence 386610 from Patent EP1572962.
JD128659 - Sequence 109683 from Patent EP1572962.
JD547704 - Sequence 528728 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: C20orf21 , ENST00000370339.1, ENST00000370339.2, ENST00000370339.3, ENST00000370339.4, ENST00000370339.5, ENST00000370339.6, ENST00000370339.7, NM_017798, Q8N3G5, Q8TBT1, Q96AN4, Q96S57, Q9BTI7, Q9BYJ9, Q9NX79, uc318ihk.1, uc318ihk.2, YTHD1_HUMAN, YTHDF1
UCSC ID: ENST00000370339.8_7
RefSeq Accession: NM_017798.4
Protein: Q9BYJ9 (aka YTHD1_HUMAN or YTH1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.