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YTHDC2 Gene

protein-coding GIFtS: 44

GC05P112877

YTH domain containing 2
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
About This Section

Aliases
DKFZp564A186 ^¹
EC 3.6.1.- ^³
FLJ10053 ^¹
FLJ2194 ^¹

Descriptions
YTH domain containing 2 ^²

External Ids
HGNC: 24721¹
Entrez Gene: 64848²
UniProtKB: Q9H6S0³
Ensembl: ENSG00000047188⁷

Search outside databases for aliases for YTHDC2 gene

Previous GC identifer: GC05P112926

(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 YTHDC2 gene

Entrez Gene cytogenetic band: 5q22.2 Ensembl cytogenetic band: 5q22.2 HGNC cytogenetic band: 5q22.3

YTHDC2 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 5 GeneLoc Exon Structure

GeneLoc location for GC05P112877: (about GC identifiers)

Start:	112,877,309 bp from pter
End:	112,958,880 bp from pter
Size:	81,572 bases
Orientation:	plus strand

RefSeq DNA sequence:

NC_000005.8 NT_034772.5

(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: YTDC2_HUMAN, Q9H6S0 (See protein sequence)

Recommended Name: Probable ATP-dependent RNA helicase YTHDC2

Size: 1430 amino acids; 160248 Da

PDB structures from and Proteopedia :

2YU6 (3D)

Secondary accessions: B2RP66

Post-translational modifications:

View phosphorylation sites using PhosphoSite²

REFSEQ proteins: NP_073739.2

ENSEMBL proteins:

ENSP00000161863

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
	Browse Purified and Recombinant Proteins at Millipore
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	Browse Abcam for Recombinant Proteins
	Browse Abnova for Human Recombinant Proteins

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

Antibodies for YTHDC2:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
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	Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
	Browse Abnova for Monoclonal and Polyclonal Antibodies
	Search Novus for antibodies for YTHDC2

Assays for YTHDC2:

	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)
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Graphical View of Domain Structure for InterPro Entry Q9H6S0

ProtoNet protein and cluster: Q9H6S0

UniProtKB/Swiss-Prot: YTDC2_HUMAN, Q9H6S0

Similarity: Belongs to the DEAD box helicase family. DEAH subfamily

Similarity: Contains 2 ANK repeats

Similarity: Contains 1 helicase ATP-binding domain

Similarity: Contains 1 helicase C-terminal domain

Similarity: Contains 1 R3H domain

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 (YTHDC2)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (YTHDC2)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_022828

Applied Biosystems Silencer® siRNAs for YTHDC2

Sigma-Aldrich siRNA for YTHDC2

Sigma-Aldrich shRNA Panels and shRNA for YTHDC2

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_022828
Myc/DDK tagged cDNA clone in CMV expression vector: NM_022828
untagged cDNA clones in CMV expression vector (see all 2): AK096486

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_022828

1 Gene Ontology (GO) molecular function term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0004386	helicase activity	IEA	--

About this table

(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.)
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(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 YTHDC2

(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 (YTHDC2)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (YTHDC2)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_022828

Sigma-Aldrich siRNA for YTHDC2

Sigma-Aldrich shRNA Panels and shRNA for YTHDC2

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_022828

REFSEQ mRNAs for YTHDC2 gene:

NM_022828.2

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_022828

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_022828
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_022828
                                 untagged cDNA clones in CMV expression vector (see all 2): AK096486

Additional cDNA sequence:

AK000915.1 AK025593.1 AK095368.1 AK096486.1 AK131450.1 AK225316.1 AK310855.1 AL049305.1

BC019100.2 BC137285.1 CR614354.1 CR627037.1

11 DOTS entries:

DT.91754242 DT.40131006 DT.113188 DT.100022403 DT.91754228 DT.95272922 DT.100012653 DT.120812363

DT.97793725 DT.91660640 DT.95272923

24/168 AceView cDNA sequences (see all 168 ):

AA976570 AI434990 BC019100 CR614354 AA922641 BG203583 BU183816 BX437705

AW514633 AA282082 CB268902 AI207209 AI332392 AI367658 NM_022828 BX095474

AA309730 AA283156 AK095368 AI992372 AA976993 BF056966 AI219789 AI887563

highest scoring ESTs for YTHDC2:

AL049305 AA282082 AA309730 AA402895 AA406008 AA431784 AA458876 AA459066 AA483206 AA731201

Unigene Cluster for YTHDC2:

YTH domain containing 2

Hs.231942 [show with all ESTs]

Unigene Representative Sequence: CR627037

GeneLoc Exon Structure

5/8 Alternative Splicing Database (ASD) splice patterns (SP) for YTHDC2 (see all 8 )

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:

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

About this scheme

ECgene alternative splicing isoforms for YTHDC2

1 Ensembl transcript including schematic representation:

ENST00000161863

(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

YTHDC2 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for YTHDC2

¹ / ² / ³

9 probe-sets matching YTHDC2 gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
41398_at²^{, 3}	U95-A	1	1.00	1.00	0.56	1.42	AL049305	1.00	1.00	1.00	1
78857_at²^{, 3}	U95-D	1	1.00	1.00	0.89	0.59	AI088192	0.60	1.00	0.82	1
205836_s_at²^{, 3}	U133-A	1	1.00	1.00	--	--	NM_022828	0.60	1.00	0.82	1
205835_s_at²^{, 3}	U133-A	1	1.00	1.00	--	--	AW975818	0.80	1.00	0.91	1
213077_at²^{, 3}	U133-A	1	1.00	1.00	--	--	AL049305	1.00	1.00	1.00	1
205836_s_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
205835_s_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
1568680_s_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
213077_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: TACTTAATAG

SOURCE GeneReport for Unigene cluster: Hs.231942

(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 YTHDC2 gene from 5/11 species (see all 11 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	YTHDC2¹	--	YTH domain containing 2	93.7(n) 97.55(a)	474641 XM_531871.2 XP_531871.2
chimpanzee (Pan troglodytes)	YTHDC2¹	--	YTH domain containing 2	99.65(n) 99.72(a)	462004 XM_517881.2 XP_517881.2
cow (Bos taurus)	YTHDC2¹	--	YTH domain containing 2	93.66(n) 96.99(a)	541024 XM_614159.3 XP_614159.3
rat (Rattus norvegicus)	Ythdc2¹	--	YTH domain containing 2	92.76(n) 97.86(a)	307446 XM_225959.4 XP_225959.4
mouse (Mus musculus)	Ythdc2^{1, 5}	18⁵	YTH domain containing 2^{1, 5}	91.63(n)¹ 97.2(a)¹	240255¹ XM_140310.8¹ XP_140310.8¹ AK140113⁵ AV157353⁵ (see all 10)

About this table Species with no ortholog for YTHDC2

ENSEMBL Gene Tree for YTHDC2

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

Paralogs for YTHDC2 gene

DHX37² DHX34²

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

10/518 NCBI SNPs in YTHDC2 are shown (see all 518 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 204)

AB	SNP ID	Valid	Chr 5 pos	Sequence	Recs	AA Chg	Type	More	Recs	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--			--
	rs7713451^1,2	A,C,F,H	112958464(+)	`TTCTCT/CGGGAA`	1	--	ut3¹ ese³		7	EU EA WA NA	560
--	rs7730949^1,2	A,C,F,H	112958102(+)	`TTTTCG/ACATAT`	1	--	ut3¹ ese³		7	EU EA WA NA	554
	rs10071816^1,2	A,C,F,H	112917273(+)	`TGACAG/ATACAC`	1	S/N	mis¹ ese³		12	EU EA WA	1256
	rs929774^1,2	A,C,F,H	112877377(-)	`GCCTGT/CGTTGG`	1	--	ut5¹ ese³		5	MN EU EA WA	596
	rs2416282^1,2	C,F,H	112876666(-)	`ACTGTG/TTATCA`	1	--	ng5¹		4	EU EA WA	420
	rs1132528^1,2	C,F,H	112956912(+)	`ACCTCT/AGGTTG`	1	Q/L	mis¹		18	EA NA EU WA	2962
	rs957777^1,2	A,F,H	112876553(-)	`AAGAAG/ATATCT`	1	--	ng5¹		8	NA EA MN EU WA	910
	rs1052896^1,2	A,F,H	112958851(+)	`CTTTAA/GATATA`	1	--	ut3¹		4	EU EA WA	372
	rs9552^1,2	C,F,H	112957593(+)	`ATAGTA/GTGTGC`	1	--	ut3¹ ese³		9	MN EU EA WA NA	930
	rs17135754^1,2	F,H	112957991(+)	`TTGCTG/CTGCGT`	1	--	ut3¹ ese³		7	NA EU EA WA	560

About this table

HapMap Linkage Disequilibrium images for YTHDC2 (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

9 PubMed articles for YTHDC2 gene:

Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)^{3, 4} Olsen J.V....Mann M. (2006)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{3, 4} Ota T....Sugano S. (2004)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)^{2, 3} Strausberg R.L....Marra M.A. (2002)
A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)⁴ Dephoure N.... Gygi S.P. (2008)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)⁴ Gerhard D.S....Malek J. (2004)
The DNA sequence and comparative analysis of human chromosome 5. (PubMed id 15372022)⁴ Schmutz J.... Rubin E.M. (2004)
Large-scale characterization of HeLa cell nuclear phosphoproteins. (PubMed id 15302935)³ Beausoleil S.A....Gygi S.P. (2004)
Construction and characterization of a full length-enriched and a 5'- end-enriched cDNA library. (PubMed id 9373149)³ Suzuki Y.... Sugano S. (1997)
Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides. (PubMed id 8125298)³ Maruyama K. and Sugano S. (1994)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
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)
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Entrez Gene: 64848	HGNC: 24721	AceView: YTHDC2	Ensembl:ENSG00000047188	euGenes: HUgn64848
ECgene: YTHDC2	H-InvDB: YTHDC2

(According to HUGE)
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(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

Licensable Technologies for YTHDC2
(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 YTHDC2:

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 YTHDC2-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 YTHDC2		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for YTHDC2		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

	Antibodies		Primer Pairs
	Cell Culture Products		ELISAs
	Flow Cytometry Kits		Protease Activity Assays & Reagents
	Cell Selection/Detection Kits & Reagents		ELISA/Assay Development Kits & Reagents
	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

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

Search Novus for antibodies for YTHDC2

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YTHDC2 Gene

protein-coding GIFtS: 44

Aliases &
Descriptions
for YTHDC2

Summaries
for YTHDC2

Genomic Location
for YTHDC2

Proteins
for YTHDC2

Protein Domains/
Families
for YTHDC2

Gene Function
for YTHDC2

Pathways & Interactions
for YTHDC2

Drugs & Compounds
for YTHDC2

Transcripts
for YTHDC2

Expression
for YTHDC2

Orthologs
for YTHDC2

Paralogs
for YTHDC2

SNPs/Variants
for YTHDC2

Disorders & Mutations
for YTHDC2

Medical News
for YTHDC2

Publications
for YTHDC2

Search for YTHDC2

Genome Databases showing YTHDC2

Other Databases showing YTHDC2

Specialized Databases showing YTHDC2

Licensable Technologies
for YTHDC2

Services
for YTHDC2

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

YTHDC2 Gene

protein-coding GIFtS: 44

Aliases & Descriptionsfor YTHDC2

Summariesfor YTHDC2

Genomic Locationfor YTHDC2

Proteinsfor YTHDC2

Protein Domains/Familiesfor YTHDC2

Gene Functionfor YTHDC2

Pathways & Interactionsfor YTHDC2

Drugs & Compoundsfor YTHDC2

Transcriptsfor YTHDC2

Expression for YTHDC2

Orthologsfor YTHDC2

Paralogsfor YTHDC2

SNPs/Variantsfor YTHDC2

Disorders & Mutationsfor YTHDC2

Medical Newsfor YTHDC2

Publicationsfor YTHDC2

Search for YTHDC2

Genome Databases showing YTHDC2

Other Databases showing YTHDC2

Specialized Databases showing YTHDC2

Licensable Technologiesfor YTHDC2

Servicesfor YTHDC2

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for YTHDC2

Summaries
for YTHDC2

Genomic Location
for YTHDC2

Proteins
for YTHDC2

Protein Domains/
Families
for YTHDC2

Gene Function
for YTHDC2

Pathways & Interactions
for YTHDC2

Drugs & Compounds
for YTHDC2

Transcripts
for YTHDC2

Expression
for YTHDC2

Orthologs
for YTHDC2

Paralogs
for YTHDC2

SNPs/Variants
for YTHDC2

Disorders & Mutations
for YTHDC2

Medical News
for YTHDC2

Publications
for YTHDC2

Licensable Technologies
for YTHDC2

Services
for YTHDC2