YTHDC1 Gene
protein-coding GIFtS: 43
GCID: GC04M069176
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YTH domain containing 1
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Aliases
for YTHDC1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| YTH Domain Containing 11 2 | | Putative Splicing Factor YT5212 3 | | YT5211 2 3 | | Splicing Factor YT521-B2 | | YT521-B1 2 | | YTH Domain-Containing Protein 12 | | KIAA19661 3 | | |
Export aliases for YTHDC1 gene to outside databasesPrevious GC identifers: GC04M069008 GC04M068858 GC04M065089 |
Summaries
for YTHDC1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: YTDC1_HUMAN, Q96MU7Function: May be part of a signal transduction pathway that influences splice site selection (By similarity)
Gene Wiki entry for YTHDC1
|
Genomic Views
for YTHDC1 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000004.11 NC_018915.1 NT_022778.16 NT_167250.1
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the YTHDC1 gene promoter:
MEF-2A AP-2beta aMEF-2 AP-2gamma AP-2alphaA RSRFC4 YY1
Other transcription factors
Search SABiosciences Chromatin IP Primers for YTHDC1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat YTHDC1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 4q13.2 Ensembl cytogenetic band: HSCHR4_1 HGNC cytogenetic band: 4q13.3YTHDC1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 4 GeneLoc Exon Structure GeneLoc location for GC04M069176: view genomic region
(about GC identifiers)
Start:
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69,176,103 bp from pter |
End:
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69,215,824 bp from pter |
Size:
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39,722 bases |
Orientation:
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minus strand |
1 alternative location:
| Chr4-,ALT_REF_LOCI_8 69,234,939-69,274,658 |
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Proteins
for YTHDC1 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: YTDC1_HUMAN, Q96MU7 (See
protein sequence)Recommended Name: YTH domain-containing protein 1 Size: 727 amino acids; 84700 Da
Subunit: Interacts with EMD, KHDRBS1/SAM68, KHDRBS3, TRA2B/SFRS10, SC35 and SF2 (By similarity). Interacts with RBMX
Subcellular location: Nucleus (By similarity). Note=Localizes to a novel subnuclear structure, the YT bodies (Bysimilarity)
Sequence caution: Sequence=AAY41024.1; Type=Erroneous gene model prediction; Sequence=BAB71181.1; Type=Erroneousinitiation;
1 PDB 3D structure from  and Proteopedia  for YTHDC1:2YUD (3D)
Secondary accessions: Q4W5Q3 Q7Z622 Q8TF35Alternative splicing: 2 isoforms: Q96MU7-1 Q96MU7-2 Explore the universe of human proteins at neXtProt for YTHDC1: NX_Q96MU7
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q96MU7
YTHDC1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001026902.1 NP_588611.2
ENSEMBL proteins: ENSP00000448618 ENSP00000447653
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
YTHDC1 for ontologies About GeneDecksing
YTHDC1 Antibody Products:
Assay Products for YTHDC1: |
Protein
Domains /
Families
for YTHDC1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
YTHDC1 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q96MU7ProtoNet protein and cluster: Q96MU7 1 Blocks protein family: IPB007275 YT521-B-like protein
UniProtKB/Swiss-Prot: YTDC1_HUMAN, Q96MU7Similarity: Contains 1 YTH domain |
Function
for YTHDC1 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: YTDC1_HUMAN, Q96MU7Function: May be part of a signal transduction pathway that influences splice site selection (By similarity)
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDC1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDC1 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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Synthesis Service for YTHDC1 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YTHDC1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YTHDC1 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table
YTHDC1 for ontologies About GeneDecksing
6 GenomeRNAi human phenotypes for YTHDC1:
|
Pathways & Interactions
for YTHDC1 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for YTHDC1
5/16 Interacting proteins for YTHDC1 (Q96MU73) via UniProtKB, MINT, STRING, and/or I2D (see all 16)About this table
Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table
YTHDC1 for ontologies About GeneDecksing
|
Drugs & Compounds
for YTHDC1 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for YTHDC1
Search CenterWatch for drugs/clinical trials and news about YTHDC1 / YTDC1
|
Transcripts
for YTHDC1 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for YTHDC1 gene (2 alternative transcripts): NM_001031732.2 NM_133370.2 Unigene Cluster for YTHDC1: YTH domain containing 1 Hs.175955 [show with all ESTs]Unigene Representative Sequence: NM_0010317322 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000552105 ENST00000550485
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDC1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDC1 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): YTHDC1 (NM_133370) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for YTHDC1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YTHDC1 |
Additional cDNA sequence: AB075846.1 AK056430.1 AK090836.1 AK098515.1 AL049340.1 AL157447.1 AL832559.1 BC041119.1 BC053863.1 19 DOTS entries: DT.319276 DT.95226740 DT.208534 DT.100030794 DT.319271 DT.40206935 DT.95095287 DT.121236845 DT.97826357 DT.92410275 DT.92419278 DT.92434776 DT.92434777 DT.100680976 DT.310195 DT.99939310 DT.310194 DT.91754711 DT.95226769 24/271 AceView cDNA sequences (see all 271): AV650131 AK098515 CA436862 CB151726 BQ029994 BQ720809 AW029475 BM800137 CD365942 F12326 BC041119 AA381681 AA247204 CA448429 AL598932 AI989475 AV705969 CA441501 AI383836 BU622854 CA422945 CA393259 BM697583 BQ020998
GeneLoc Exon Structure
|
Expression
for YTHDC1 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| YTHDC1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TAGTTGCACA
About this image
See YTHDC1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for YTHDC1
SOURCE GeneReport for Unigene cluster: Hs.175955
SABiosciences Custom PCR Arrays for YTHDC1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for YTHDC1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat YTHDC1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat YTHDC1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat YTHDC1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YTHDC1 |
Orthologs
for YTHDC1 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for YTHDC1 gene from 3/10 species (see all 10) About this table
ENSEMBL Gene Tree for YTHDC1 (if available)
TreeFam Gene Tree for YTHDC1 (if available) |
Paralogs
for YTHDC1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for YTHDC1 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for YTHDC1
1 CNV: 3499 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing YTHDC1 |
|
Disorders
/ Diseases
for YTHDC1 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
YTHDC1 for disorders About GeneDecksing
4  diseases for YTHDC1: About MalaCardsemery-dreifuss muscular dystrophy muscular dystrophy endometrial cancer hypoxia
Export disorders for YTHDC1 gene to outside databases
|
Publications
for YTHDC1 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for YTHDC1 gene, integrated from 9 sources (see all 28):
(articles sorted by number of sources associating them with YTHDC1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Emerin interacts in vitro with the splicing-associated factor, YT521- B. (PubMed id 12755701)1, 2, 9 Wilkinson F.L.... Morris G.E. (2003)
- YTH: a new domain in nuclear proteins. (PubMed id 12368078)1, 3, 9 Stoilov P....Stamm S. (2002)
- Heterogeneous Nuclear Ribonucleoprotein G Regulates Splice Site Selection by Binding to CC(A/C)-rich Regions in Pre-mRNA. (PubMed id 19282290)1, 2 Heinrich B....Stamm S. (2009)
- Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
- Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)1, 2 Hillier L.W....Wilson R.K. (2005)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Prediction of the coding sequences of unidentified human genes. XXII. The complete sequences of 50 new cDNA clones which code for large proteins. (PubMed id 11853319)1, 2 Nagase T.... Ohara O. (2001)
- 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). (PubMed id 10564280)1, 3 Hartmann A.M....Stamm S. (1999)
- Proliferating cell nuclear antigen (PCNA)-associated KIAA0101/PAF15 protein is a cell cycle-regulated anaphase-promoting complex/cyc losome substrate. (PubMed id 21628590)1 Emanuele M.J....Elledge S.J. (2011)
|
External Searches for YTHDC1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing YTHDC1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing YTHDC1 gene
(According to HUGE)
About This Section
| |
Specialized Databases showing YTHDC1 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for YTHDC1 | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for YTHDC1 gene:
Search GeneIP for patents involving YTHDC1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for YTHDC1 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for YTHDC1 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for YTHDC1 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for YTHDC1 | | | Browse OriGene Protein Over-expression Lysates | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for YTHDC1 | | OriGene 3'-UTR Clone for YTHDC1 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDC1 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDC1 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat YTHDC1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing YTHDC1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat YTHDC1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat YTHDC1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat YTHDC1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat YTHDC1 |
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 | | | YTHDC1 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YTHDC1 |
|  |  |  | | | | Search ThermoFisher Antibodies for YTHDC1 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YTHDC1 |
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