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Aliases & Descriptionsfor SMYD2 gene
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section Aliases & Descriptions SET and MYND domain containing 21 2 Lysine N-methyltransferase 3C2 3 KMT3C1 2 3 zinc finger, MYND domain containing 142 HSKM-B1 2 3 MGC1193052 ZMYND141 2 SET and MYND domain-containing protein 22
Export aliases for SMYD2 gene to outside databases Previous GC identifers: GC01P211070 GC01P211511 GC01P210842 GC01P212521 GC01P214454
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Summariesfor SMYD2 gene (According to Entrez Gene ,
Tocris Bioscience ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
About This Section Entrez Gene summary for SMYD2 : SET domain-containing proteins, such as SMYD2, catalyze lysine methylation (Brown et al., 2006 (PubMed 16805913)).(supplied by OMIM)
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Genomic Viewsfor SMYD2 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 60) ,
Regulatory elements and Epigenetics data according to
Qiagen and/or
SABiosciences )About This Section Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the SMYD2 gene promoter: p53 GR-beta GR-alpha Nkx3-1 Nkx3-1 v1 Nkx3-1 v2 Nkx3-1 v3 Nkx3-1 v4 Nkx2-2 HNF-1A Other transcription factors Search SABiosciences Chromatin IP Primers for SMYD2 Epigenetics: QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for SMYD2
Genomic Location: Genomic View : UCSC Golden Path with GeneCards custom track Entrez Gene cytogenetic band: 1q32.3 Ensembl cytogenetic band: 1q32.3 HGNC cytogenetic band: 1q32.3 SMYD2 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 1 GeneLoc Exon Structure
GeneLoc location for GC01P185129: view genomic region
(about GC identifiers )
Start:
185,129,703 bp from pter
End:
185,185,600 bp from pter
Size:
55,898 bases
Orientation:
plus strand
1 alternative location : Chr 1+ 214,454,445-214,510,474
RefSeq DNA sequence: NC_000001.10 NT_167186.1
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Proteinsfor SMYD2 gene
(According to
1 UniProtKB ,
neXtProt ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
GenScript ,
Enzo Life Sciences ,
OriGene ,
Novus Biologicals ,
Sino Biological , and/or
ProSpec ,
Biochemical Assays by
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
OriGene ,
GenScript ,
Cell Signaling Technology ,
Enzo Life Sciences , and/or
Uscn ,
Ontologies according to Gene
Ontology Consortium 01 Dec 2010 and
Entrez Gene ,
Antibodies by
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
GenScript ,
Cell Signaling Technology ,
OriGene ,
Novus Biologicals , and/or
Epitomics )
About This Section UniProtKB/Swiss-Prot: SMYD2_HUMAN, Q9NRG4 (See
protein sequence )Recommended Name: SET and MYND domain-containing protein 2 Size : 433 amino acids; 49688 Da
Secondary accessions : B2R9P9 Q4V765 Q5VSH9Explore the universe of human proteins at neXtProt for SMYD2: NX_Q9NRG4 Post-translational modifications:
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins: NP_064582.2 ENSEMBL proteins: ENSP00000409822 ENSP00000388682 ENSP00000355924 Human Recombinant Proteins Antibodies for SMYD2: Assays for SMYD2:
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Protein
Domains/ Familiesfor SMYD2 gene (According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
About This Section
SMYD2 for domains About GeneDecksing 3 InterPro domains/families :
Graphical View of Domain Structure for InterPro Entry Q9NRG4 ProtoNet protein and cluster: Q9NRG4
2 Blocks protein families : IPB001214 Nuclear protein SET IPB002893 Zn-finger UniProtKB/Swiss-Prot: SMYD2_HUMAN, Q9NRG4 Similarity : Contains 1 MYND-type zinc fingerSimilarity : Contains 1 SET domain
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Gene Functionfor SMYD2 gene
(According to UniProtKB ,
IUBMB ,and/or
Genatlas , Animal models from MGI Dec 24 2010,
shRNA from
OriGene ,
Sigma-Aldrich ,
RNAi from
Millipore ,
siRNAs from
Sigma-Aldrich ,
OriGene ,
Qiagen ,
Super-pooled esiRNAs from Sigma-Aldrich ,
microRNA from Sigma-Aldrich ,
Qiagen ,
SABiosciences ,
Clones from Millipore ,
Sigma-Aldrich ,
OriGene ,
GenScript ,
Sino Biological ,
Cell Lines from GenScript ,
Ontologies according to Gene Ontology Consortium 01 Dec 2010 via
Entrez Gene .)
About This Section 3 Gene Ontology (GO) molecular function terms (GO ID links to tree view) :
About this table
SMYD2 for ontologies About GeneDecksing Animal Models: 1 MGI mutant phenotype (inferred from 1 allele ) (MGI details for Smyd2) :
SMYD2 for phenotypes About GeneDecksing
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Pathways & Interactionsfor SMYD2 gene
(Pathways according to
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
PCR Arrays from
SABiosciences ,
Proteins Network according to
SABiosciences ,
Sigma-Aldrich ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Dec 2010 via
Entrez Gene) .
About This Section SABiosciences Custom Pathway-Focused PCR Arrays for SMYD2 SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SMYD2 5/7 Interacting proteins for SMYD2 (Q9NRG4 1 ) via UniProtKB, MINT, and/or STRING (see all 7 )About this table
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Drugs & Compoundsfor SMYD2 gene (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 Tocris compounds for SMYD2
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Transcriptsfor SMYD2 gene (GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 228 Homo sapiens; Dec 8 2010) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
transcript ids from Ensembl
with links to UCSC ,
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
Millipore ,
siRNAs from
Sigma-Aldrich ,
OriGene ,
Qiagen ,
Super-pooled esiRNAs from Sigma-Aldrich ,
shRNA from
Sigma-Aldrich ,
OriGene ,
microRNA from Sigma-Aldrich ,
Qiagen ,
SABiosciences ,
Tagged/untagged cDNA clones from
OriGene ,
Sigma-Aldrich ,
GenScript ,
Primers from
OriGene and/or
SABiosciences )About This Section REFSEQ mRNAs for SMYD2 gene: NM_020197.2
Additional cDNA sequence: AF070592.1 AF226053.1 AK090571.1 AK091590.1 AK098683.1 AK313868.1 BC017080.2 BC028104.1 BC039890.1 BC057793.1 BC068511.1 BC098133.1 BC098276.1 BC098335.1 CR589978.1 CR592315.1 CR613242.1 CR617804.1 CR622801.1
14 DOTS entries : DT.446799 DT.95183994 DT.100032982 DT.91800781 DT.100819009 DT.100033037 DT.40250753 DT.100819010
DT.91924949 DT.97858902 DT.100809597 DT.75140314 DT.91692734 DT.444352 24/213 AceView cDNA sequences (see all 213 ):
R88886 H98065 CR622801 BC028104 BC017080 AI708404 CR613242 AK098683 AI627479 BM739135 CR589978 AW519313 CR592315 BM740370 CA434890 CF552077 AI692922 AA804764 AI377234 CA411809 CR617804 CA313122 BM466219 BC039890
highest scoring ESTs for SMYD2 :AA013448 AA252060 AA455686 AA505984 AA580554 AA581289 AA804764 AA812663 AA812773 AA897260 Unigene Cluster for SMYD2:
SET and MYND domain containing 2 Hs.66170 [show with all ESTs ] Unigene Representative Sequence: BC068511 GeneLoc Exon Structure 5/6 Alternative Splicing Database (ASD) splice patterns (SP) for SMYD2 (see all 6 ) ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12a · 12b SP1 :               -           -     -         SP2 :               -         -   -   -   -         SP3 :     -           -                       SP4 :                                     SP5 :                                    
About this scheme ECgene alternative splicing isoforms for SMYD2 7 Ensembl transcripts including schematic representations, and UCSC links where relevant : ENST00000416415 ENST00000415093 ENST00000471645 (uc009xdj.2 uc010ptw.1 )ENST00000460580 ENST00000484459 ENST00000366957 ENST00000491455 (uc010ptx.1 uc009xdl.1 )
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Expression for SMYD2 gene
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 228 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Primers from
OriGene and/or
SABiosciences
)
About This Section SMYD2 expression in normal and diseased human tissues 1 / 2 / 3
4 probe-sets matching SMYD2 gene
Affymetrix probe-set
Array
GeneAnnot data
GeneNote data
GeneTide data
# genes
Sensitivity
Specificity
Correlation
Length
Gb_Accession
Consensus
Uniqueness
Score
Rank
212922_s_at2 , 3
U133-A
1
1.00
1.00
--
--
AI809870
0.80
1.00
0.91
1
212921_at2 , 3
U133-A
1
0.36
1.00
--
--
AF070592
0.80
1.00
0.91
1
212922_s_at2
U133Plus2
1
1.00
1.00
--
--
--
--
--
--
--
212921_at2
U133Plus2
1
0.36
1.00
--
--
--
--
--
--
--
About this table Data from
Genenote  
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: CCTCTTGTAA SOURCE GeneReport for Unigene cluster: Hs.66170 Expression variation in blood from EXPOLDB for SMYD2
SABiosciences Custom PCR Arrays for SMYD2
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Orthologsfor SMYD2 gene
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Dec 24 2010,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
About This Section
Orthologs for SMYD2 gene from 5/10 species (see all 10 )
About this table Species with no ortholog for SMYD2 ENSEMBL Gene Tree for SMYD2 (if available)
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Paralogsfor SMYD2 gene (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section Paralogs for SMYD2 gene SMYD4 2 SMYD1 2 SMYD3 2
SMYD2 for paralogs About GeneDecksing
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Genomic Variantsfor SMYD2 gene (SNPs according to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants , Resequencing Primers from Qiagen )
About This Section
Genomic Data Transcription Related Data Allele Frequencies SNP ID Valid Chr 1 pos Sequence Recs AA Chg Type More Recs Allele freq Pop Total sample More
About this table HapMap Linkage Disequilibrium images for SMYD2 (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV) variations for SMYD2: --
QIAGEN SeqTarget long-range PCR primers for resequencing SMYD2
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Disorders & Mutationsfor SMYD2 gene
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
LSDB, HGMD, GAD ,
HuGE Navigator ,
and/or TGDB .)
About This Section
SMYD2 for disorders About GeneDecksing
OMIM: 610663 Human Genome Epidemiology (HuGE) Navigator: SMYD2 (1 document)Export disorders and mutations for SMYD2 gene to outside databases
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Medical Newsfor SMYD2 gene (Possibly Related Articles in
Doctor's Guide )
About This Section --
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Publicationsfor SMYD2 gene (in
PubMed .
Associations of this gene to articles via
1 Entrez Gene ,
2 UniProtKB/Swiss-Prot ,
3 HGNC ,
4 GAD ,
5 PharmGKB ,
6 UniProtKB/TrEMBL , and/or
7 Novoseek )
About This Section 10/14 PubMed articles for SMYD2 gene, integrated from 7 sources (see all 14 ): (articles sorted by number of sources associating them with SMYD2) The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414) 1 , 2 Gregory S.G.... Bentley D.R. (2006) 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) Coeliac disease associated risk variants in TNFAIP3 and REL implicate altered NF-{kappa}B signalling. (PubMed id 19240061) 1 Trynka G....Wijmenga C. (2009) Overexpression of SMYD2 relates to tumor cell prolife ration and malignant outcome of esophageal squamous cell carcinoma. (PubMed id 19423649) 1 Komatsu S....Inazawa J. (2009) The tale of two domains: proteomics and genomics analysis of SMYD2, a new histone methyltransferase. (PubMed id 18065756) 1 Abu-Farha M....Figeys D. (2008) Large-scale mapping of human protein-protein interactions by mass spectrometry. (PubMed id 17353931) 1 Ewing R.M.... Figeys D. (2007) Repression of p53 activity by Smyd2-mediated methylation. (PubMed id 17108971) 1 Huang J.... Berger S.L. (2006) Identification and characterization of Smyd2: a split SET/MYND domain-containing histone H3 lysine 36-specific methyltransferase that interacts with the Sin3 histone deacetylase complex. (PubMed id 16805913) 1 Brown M.A....Tucker P.W. (2006) JTE-522, a selective COX-2 inhibitor, inhibits growth of pulmonary metastases of colorectal cancer in rats. (PubMed id 15743541) 1 Kobayashi H....Sugihara K. (2005) Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039) 2 Ota T.... Sugano S. (2004)
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External Searches for SMYD2 gene
(in PubMed ,
OMIM , and NCBI Bookshelf ) About This Section
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Genome Databases showing SMYD2 gene
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
Kegg ,
and/or
H-InvDB )
About This Section
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Other Databases showing SMYD2 gene
(According to HUGE )
About This Section --
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Specialized Databases showing SMYD2 gene (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
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About This Section Patent Information for SMYD2 gene: Search GeneIP for patents involving SMYD2 GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Productsfor SMYD2 gene (Antibodies, recombinant proteins, and assays by Millipore , Sigma-Aldrich , R&D Systems , Qiagen , GenScript , Cell Signaling Technology , SABiosciences , Novus Biologicals , Epitomics , ProSpec , Uscn , Clones available from Millipore , Sigma-Aldrich , OriGene , GenScript , Sino Biological , PCR Arrays from SABiosciences , Drugs and/or compounds by Sigma-Aldrich , Tocris Bioscience , and/or
Enzo Life Sciences )About This Section
Antibodies & Assays for SMYD2  
Search Tocris compounds for SMYD2
ELISAs and CLIAs for SMYD2
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