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Aliases for YTHDC2 Gene

Aliases for YTHDC2 Gene

  • YTH Domain Containing 2 2 3 5
  • YTH Domain-Containing Protein 2 3 4
  • CsA-Associated Helicase-Like Protein 3
  • EC 3.6.4.13 4
  • EC 3.6.1 63
  • CAHL 3

External Ids for YTHDC2 Gene

Previous GeneCards Identifiers for YTHDC2 Gene

  • GC05P112926
  • GC05P112877
  • GC05P108032

Summaries for YTHDC2 Gene

GeneCards Summary for YTHDC2 Gene

YTHDC2 (YTH Domain Containing 2) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and helicase activity. An important paralog of this gene is DHX29.

UniProtKB/Swiss-Prot for YTHDC2 Gene

  • Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs (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:26318451).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for YTHDC2 Gene

Genomics for YTHDC2 Gene

Regulatory Elements for YTHDC2 Gene

Enhancers for YTHDC2 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around YTHDC2 on UCSC Golden Path with GeneCards custom track

Promoters for YTHDC2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around YTHDC2 on UCSC Golden Path with GeneCards custom track

Genomic Location for YTHDC2 Gene

Chromosome:
5
Start:
113,513,683 bp from pter
End:
113,595,287 bp from pter
Size:
81,605 bases
Orientation:
Plus strand

Genomic View for YTHDC2 Gene

Genes around YTHDC2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
YTHDC2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for YTHDC2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for YTHDC2 Gene

Proteins for YTHDC2 Gene

  • Protein details for YTHDC2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H6S0-YTDC2_HUMAN
    Recommended name:
    Probable ATP-dependent RNA helicase YTHDC2
    Protein Accession:
    Q9H6S0
    Secondary Accessions:
    • B2RP66

    Protein attributes for YTHDC2 Gene

    Size:
    1430 amino acids
    Molecular mass:
    160248 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB15183.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for YTHDC2 Gene

neXtProt entry for YTHDC2 Gene

Proteomics data for YTHDC2 Gene at MOPED

Selected DME Specific Peptides for YTHDC2 Gene

Post-translational modifications for YTHDC2 Gene

  • Ubiquitination at Lys 1307
  • Modification sites at PhosphoSitePlus

Other Protein References for YTHDC2 Gene

Domains & Families for YTHDC2 Gene

Suggested Antigen Peptide Sequences for YTHDC2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H6S0

UniProtKB/Swiss-Prot:

YTDC2_HUMAN :
  • The YTH domain mediates RNA-binding.
  • Belongs to the DEAD box helicase family. DEAH subfamily.
  • Contains 2 ANK repeats.
Domain:
  • The YTH domain mediates RNA-binding.
  • Contains 1 helicase ATP-binding domain.
  • Contains 1 helicase C-terminal domain.
  • Contains 1 R3H domain.
  • Contains 1 YTH domain.
Family:
  • Belongs to the DEAD box helicase family. DEAH subfamily.
Similarity:
  • Contains 2 ANK repeats.
genes like me logo Genes that share domains with YTHDC2: view

No data available for Gene Families for YTHDC2 Gene

Function for YTHDC2 Gene

Molecular function for YTHDC2 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate.
UniProtKB/Swiss-Prot Function:
Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs (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:26318451).

Enzyme Numbers (IUBMB) for YTHDC2 Gene

Gene Ontology (GO) - Molecular Function for YTHDC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004004 ATP-dependent RNA helicase activity IBA --
GO:0005515 protein binding IEA,IPI 21903422
GO:0005524 ATP binding IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
GO:0070063 RNA polymerase binding IPI 21559518
genes like me logo Genes that share ontologies with YTHDC2: view
genes like me logo Genes that share phenotypes with YTHDC2: view

Animal Model Products

miRNA for YTHDC2 Gene

miRTarBase miRNAs that target YTHDC2

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YTHDC2 Gene

Localization for YTHDC2 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for YTHDC2 Gene COMPARTMENTS Subcellular localization image for YTHDC2 gene
Compartment Confidence
endoplasmic reticulum 4
cytosol 3
nucleus 3
cytoskeleton 1
mitochondrion 1
peroxisome 1
plasma membrane 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for YTHDC2 Gene

Pathways & Interactions for YTHDC2 Gene

SuperPathways for YTHDC2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for YTHDC2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0070555 response to interleukin-1 IDA 21559518
genes like me logo Genes that share ontologies with YTHDC2: view

No data available for Pathways by source and SIGNOR curated interactions for YTHDC2 Gene

Drugs & Compounds for YTHDC2 Gene

(1) Drugs for YTHDC2 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine triphosphate Approved Nutra 0

(3) Additional Compounds for YTHDC2 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Full agonist, Agonist 58-64-0
phosphoric acid
  • Acide phosphorique (FRENCH)
  • Acido fosforico [Italian]
  • Acidum phosphoricum
  • Diphosphate tetrasodium
  • Fosforzuuroplossingen [Dutch]
7664-38-2
Water
  • Dihydrogen oxide
  • Steam
7732-18-5
genes like me logo Genes that share compounds with YTHDC2: view

Transcripts for YTHDC2 Gene

Unigene Clusters for YTHDC2 Gene

YTH domain containing 2:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for YTHDC2 Gene

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

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

Relevant External Links for YTHDC2 Gene

GeneLoc Exon Structure for
YTHDC2
ECgene alternative splicing isoforms for
YTHDC2

Expression for YTHDC2 Gene

mRNA expression in normal human tissues for YTHDC2 Gene

Protein differential expression in normal tissues from HIPED for YTHDC2 Gene

This gene is overexpressed in Pancreatic juice (25.6), Ovary (8.7), and Cerebrospinal fluid (7.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for YTHDC2 Gene



SOURCE GeneReport for Unigene cluster for YTHDC2 Gene Hs.231942

genes like me logo Genes that share expression patterns with YTHDC2: view

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for YTHDC2 Gene

Orthologs for YTHDC2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for YTHDC2 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia YTHDC2 35
  • 93.4 (n)
  • 96.64 (a)
YTHDC2 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LOC474641 35
  • 93.78 (n)
  • 97.49 (a)
YTHDC2 36
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ythdc2 35
  • 91.33 (n)
  • 96.64 (a)
Ythdc2 16
Ythdc2 36
  • 96 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia YTHDC2 35
  • 99.6 (n)
  • 99.58 (a)
YTHDC2 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ythdc2 35
  • 89.91 (n)
  • 94.24 (a)
oppossum
(Monodelphis domestica)
Mammalia YTHDC2 36
  • 95 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia YTHDC2 36
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves YTHDC2 35
  • 77.93 (n)
  • 80.27 (a)
YTHDC2 36
  • 80 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia YTHDC2 36
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ythdc2 35
  • 73.84 (n)
  • 81.39 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC567114 35
  • 62.4 (n)
  • 69.15 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007953 35
  • 49.92 (n)
  • 41.45 (a)
fruit fly
(Drosophila melanogaster)
Insecta bgcn 36
  • 23 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea F52B5.3 36
  • 23 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons HVT1 35
  • 48.66 (n)
  • 37.22 (a)
rice
(Oryza sativa)
Liliopsida Os.45507 35
Os01g0767700 35
  • 49.24 (n)
  • 39.05 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 38 (a)
OneToOne
Species with no ortholog for YTHDC2:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for YTHDC2 Gene

ENSEMBL:
Gene Tree for YTHDC2 (if available)
TreeFam:
Gene Tree for YTHDC2 (if available)

Paralogs for YTHDC2 Gene

Paralogs for YTHDC2 Gene

(2) SIMAP similar genes for YTHDC2 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with YTHDC2: view

Variants for YTHDC2 Gene

Sequence variations from dbSNP and Humsavar for YTHDC2 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs10071816 - 113,553,677(+) TGACA(A/C/G)TACAC nc-transcript-variant, reference, missense
rs1132528 - 113,593,316(+) ACCTC(A/T)GGTTG intron-variant, nc-transcript-variant, reference, missense
rs9552 -- 113,593,997(+) ATAGT(A/G)TGTGC nc-transcript-variant, utr-variant-3-prime
rs919304 -- 113,580,701(-) ATCCC(A/G)GACAG intron-variant, utr-variant-3-prime
rs929774 -- 113,513,781(-) GCCTG(C/T)GTTGG nc-transcript-variant, upstream-variant-2KB, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for YTHDC2 Gene

Variant ID Type Subtype PubMed ID
dgv6295n71 CNV Loss 21882294
nsv882721 CNV Gain 21882294
nsv882722 CNV Loss 21882294
nsv882724 CNV Loss 21882294
esv2540445 CNV Deletion 19546169
esv2162364 CNV Deletion 18987734
esv2730604 CNV Deletion 23290073
esv1743798 CNV Deletion 17803354
dgv208n6 CNV Loss 16902084
nsv520674 CNV Gain 19592680
esv2752057 CNV Gain 17911159
esv2730605 CNV Deletion 23290073
esv2730606 CNV Deletion 23290073
esv2730608 CNV Deletion 23290073
dgv1000e201 CNV Deletion 23290073

Variation tolerance for YTHDC2 Gene

Residual Variation Intolerance Score: 11.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.52; 91.12% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for YTHDC2 Gene

HapMap Linkage Disequilibrium report
YTHDC2
Human Gene Mutation Database (HGMD)
YTHDC2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for YTHDC2 Gene

Disorders for YTHDC2 Gene

Relevant External Links for YTHDC2

Genetic Association Database (GAD)
YTHDC2
Human Genome Epidemiology (HuGE) Navigator
YTHDC2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
YTHDC2

No disorders were found for YTHDC2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for YTHDC2 Gene

Publications for YTHDC2 Gene

  1. 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 67
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3
  3. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. (PMID: 25693804) Diner B.A. … Cristea I.M. (Mol. Cell Proteomics 2015) 3
  4. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3
  5. SR protein kinases promote splicing of nonconsensus introns. (PMID: 26167880) Lipp J.J. … Guthrie C. (Nat. Struct. Mol. Biol. 2015) 3

Products for YTHDC2 Gene

Sources for YTHDC2 Gene

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