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Aliases for YTHDC1 Gene

Aliases for YTHDC1 Gene

  • YTH Domain Containing 1 2 3
  • Putative Splicing Factor YT521 3 4
  • YT521-B 3 4
  • YT521 3 4
  • YTH Domain-Containing Protein 1 3
  • Splicing Factor YT521-B 3
  • KIAA1966 4

External Ids for YTHDC1 Gene

Previous GeneCards Identifiers for YTHDC1 Gene

  • GC04M069008
  • GC04M068858
  • GC04M069176
  • GC04M065089

Summaries for YTHDC1 Gene

GeneCards Summary for YTHDC1 Gene

YTHDC1 (YTH Domain Containing 1) is a Protein Coding gene.

UniProtKB/Swiss-Prot for YTHDC1 Gene

  • Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs. 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:25242552). Regulates alternative splice site selection (PubMed:20167602).

Gene Wiki entry for YTHDC1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for YTHDC1 Gene

Genomics for YTHDC1 Gene

Regulatory Elements for YTHDC1 Gene

Genomic Location for YTHDC1 Gene

Start:
68,310,387 bp from pter
End:
68,350,106 bp from pter
Size:
39,720 bases
Orientation:
Minus strand

Genomic View for YTHDC1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for YTHDC1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YTHDC1 Gene

Proteins for YTHDC1 Gene

  • Protein details for YTHDC1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96MU7-YTDC1_HUMAN
    Recommended name:
    YTH domain-containing protein 1
    Protein Accession:
    Q96MU7
    Secondary Accessions:
    • Q4W5Q3
    • Q7Z622
    • Q8TF35

    Protein attributes for YTHDC1 Gene

    Size:
    727 amino acids
    Molecular mass:
    84700 Da
    Quaternary structure:
    • Interacts with EMD, KHDRBS1/SAM68, KHDRBS3, TRA2B/SFRS10, SC35 and SF2 (By similarity). Interacts with RBMX.
    SequenceCaution:
    • Sequence=AAY41024.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=BAB71181.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for YTHDC1 Gene

    Alternative splice isoforms for YTHDC1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for YTHDC1 Gene

Proteomics data for YTHDC1 Gene at MOPED

Post-translational modifications for YTHDC1 Gene

Other Protein References for YTHDC1 Gene

No data available for DME Specific Peptides for YTHDC1 Gene

Domains for YTHDC1 Gene

Protein Domains for YTHDC1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for YTHDC1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96MU7

UniProtKB/Swiss-Prot:

YTDC1_HUMAN :
  • Q96MU7
Domain:
  • The YTH domain mediates RNA-binding.
  • Contains 1 YTH domain.
genes like me logo Genes that share domains with YTHDC1: view

No data available for Gene Families for YTHDC1 Gene

Function for YTHDC1 Gene

Molecular function for YTHDC1 Gene

UniProtKB/Swiss-Prot Function: Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs. 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:25242552). Regulates alternative splice site selection (PubMed:20167602).

Gene Ontology (GO) - Molecular Function for YTHDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 20167602
GO:0005515 protein binding IPI 19282290
GO:0044822 poly(A) RNA binding IDA 22658674
GO:1990247 N6-methyladenosine-containing RNA binding IDA 25242552
genes like me logo Genes that share ontologies with YTHDC1: view
genes like me logo Genes that share phenotypes with YTHDC1: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for YTHDC1 Gene

Localization for YTHDC1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for YTHDC1 Gene

Nucleus. Note=Localizes to a novel subnuclear structure, the YT bodies.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for YTHDC1 Gene COMPARTMENTS Subcellular localization image for YTHDC1 gene
Compartment Confidence
nucleus 3
plasma membrane 1

Gene Ontology (GO) - Cellular Components for YTHDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 20167602
GO:0005654 nucleoplasm --
GO:0016604 nuclear body IEA --
genes like me logo Genes that share ontologies with YTHDC1: view

Pathways for YTHDC1 Gene

SuperPathways for YTHDC1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YTHDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome --
GO:0006376 mRNA splice site selection IDA 20167602
genes like me logo Genes that share ontologies with YTHDC1: view

No data available for Pathways by source for YTHDC1 Gene

Transcripts for YTHDC1 Gene

Unigene Clusters for YTHDC1 Gene

YTH domain containing 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for YTHDC1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b · 13c ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20a ·
SP1: - - -
SP2: - - -
SP3: - - -
SP4: -
SP5: -
SP6: -
SP7: - -
SP8: - -
SP9:
SP10: -
SP11: -
SP12:
SP13:

ExUns: 20b · 20c ^ 21 ^ 22a · 22b · 22c ^ 23a · 23b
SP1: - -
SP2:
SP3: -
SP4:
SP5:
SP6: - -
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:

Relevant External Links for YTHDC1 Gene

GeneLoc Exon Structure for
YTHDC1
ECgene alternative splicing isoforms for
YTHDC1

Expression for YTHDC1 Gene

mRNA expression in normal human tissues for YTHDC1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for YTHDC1 Gene

SOURCE GeneReport for Unigene cluster for YTHDC1 Gene Hs.175955

genes like me logo Genes that share expressions with YTHDC1: view

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for YTHDC1 Gene

Orthologs for YTHDC1 Gene

This gene was present in the common ancestor of animals.

Orthologs for YTHDC1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia YTHDC1 35
  • 99.68 (n)
  • 99.72 (a)
YTHDC1 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia YTHDC1 35
  • 92.92 (n)
  • 94.06 (a)
YTHDC1 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia YTHDC1 35
  • 92.97 (n)
  • 94.8 (a)
YTHDC1 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ythdc1 35
  • 92.06 (n)
  • 94.2 (a)
Ythdc1 16
Ythdc1 36
  • 96 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 51 (a)
OneToMany
-- 36
  • 59 (a)
OneToMany
-- 36
  • 94 (a)
OneToMany
-- 36
  • 69 (a)
OneToMany
-- 36
  • 62 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia YTHDC1 36
  • 77 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ythdc1 35
  • 92.61 (n)
  • 95.98 (a)
chicken
(Gallus gallus)
Aves YTHDC1 36
  • 81 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia YTHDC1 36
  • 87 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.7841 35
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6830 35
ythdc1 35
  • 76.96 (n)
  • 79.15 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.776 35
zebrafish
(Danio rerio)
Actinopterygii ythdc1 35
  • 75.81 (n)
  • 86.68 (a)
ythdc1 36
  • 71 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta YT521-B 36
  • 28 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.1604 35
Species with no ortholog for YTHDC1:
  • 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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)
  • rice (Oryza sativa)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for YTHDC1 Gene

ENSEMBL:
Gene Tree for YTHDC1 (if available)
TreeFam:
Gene Tree for YTHDC1 (if available)

Paralogs for YTHDC1 Gene

No data available for Paralogs for YTHDC1 Gene

Variants for YTHDC1 Gene

Sequence variations from dbSNP and Humsavar for YTHDC1 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type MAF
rs1129467 -- 68,343,630(+) tctga(G/T)gttca intron-variant
rs1134033 -- 68,349,798(-) CGCGT(C/T)TAAgc utr-variant-5-prime
rs1136378 -- 68,334,005(-) GTAGG(G/T)ATAAA intron-variant
rs1715080 -- 68,310,432(+) GACAA(C/T)AGTCA utr-variant-3-prime
rs1715081 -- 68,311,080(+) ACATG(C/T)GCCTC utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for YTHDC1 Gene

Variant ID Type Subtype PubMed ID
dgv1626e1 CNV Complex 17122850
dgv1628e1 CNV Complex 17122850
dgv88n17 CNV Loss 16327808

Relevant External Links for YTHDC1 Gene

HapMap Linkage Disequilibrium report
YTHDC1
Human Gene Mutation Database (HGMD)
YTHDC1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YTHDC1 Gene

Disorders for YTHDC1 Gene

No disorders were found for YTHDC1 Gene.

No data available for UniProtKB/Swiss-Prot for YTHDC1 Gene

Publications for YTHDC1 Gene

  1. YTH: a new domain in nuclear proteins. (PMID: 12368078) Stoilov P. … Stamm S. (Trends Biochem. Sci. 2002) 2 3 23
  2. Emerin interacts in vitro with the splicing-associated factor, YT521- B. (PMID: 12755701) Wilkinson F.L. … Morris G.E. (Eur. J. Biochem. 2003) 3 4 23
  3. The interaction and colocalization of Sam68 with the splicing-associated factor YT521-B in nuclear dots is regulated by the Src family kinase p59(fyn). (PMID: 10564280) Hartmann A.M. … Stamm S. (Mol. Biol. Cell 1999) 2 3
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  5. Structural basis for selective binding of m6A RNA by the YTHDC1 YTH domain. (PMID: 25242552) Xu C. … Min J. (Nat. Chem. Biol. 2014) 3 4

Products for YTHDC1 Gene

Sources for YTHDC1 Gene

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