SMYD4 Gene
protein-coding GIFtS: 47
GCID: GC17M001682
|
|
SET and MYND domain containing 4
| |
Aliases
for SMYD4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| SET And MYND Domain Containing 41 2 | | ZMYND211 2 | | KIAA19361 3 | | SET And MYND Domain-Containing Protein 42 |
Export aliases for SMYD4 gene to outside databasesPrevious GC identifers: GC00U911629 GC17M001891 GC17M001630 GC17M001580 |
Summaries
for SMYD4 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Gene Wiki entry for SMYD4
|
Genomic Views
for SMYD4 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_000017.10 NC_018928.1 NT_010718.16
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SMYD4 gene promoter:
MAZR NF-YA CBF-C FAC1 CBF-A CBF-B CP1A CP1C NF-Y CBF(2)
Other transcription factors
Search SABiosciences Chromatin IP Primers for SMYD4
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SMYD4 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 17p13.3 Ensembl cytogenetic band: 17p13.3 HGNC cytogenetic band: 17p13.3SMYD4 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 17 GeneLoc Exon Structure GeneLoc location for GC17M001682: view genomic region
(about GC identifiers)
Start:
|
1,682,779 bp from pter |
End:
|
1,733,928 bp from pter |
Size:
|
51,150 bases |
Orientation:
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minus strand |
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Proteins
for SMYD4 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: SMYD4_HUMAN, Q8IYR2 (See
protein sequence)Recommended Name: SET and MYND domain-containing protein 4 Size: 804 amino acids; 89225 Da
Secondary accessions: Q8N1P2 Q8NAT0 Q96LV4 Q96PV2Explore the universe of human proteins at neXtProt for SMYD4: NX_Q8IYR2
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8IYR2
SMYD4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_443160.2
ENSEMBL proteins: ENSP00000304360 ENSP00000460921 ENSP00000459819 ENSP00000461089 ENSP00000459129
Human Recombinant Protein Products:
SMYD4 Antibody Products:
Assay Products for SMYD4: |
Protein
Domains /
Families
for SMYD4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SMYD4 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8IYR2ProtoNet protein and cluster: Q8IYR2 2 Blocks protein families: IPB001214 Nuclear protein SET IPB002893 Zn-finger
UniProtKB/Swiss-Prot: SMYD4_HUMAN, Q8IYR2Similarity: Contains 1 MYND-type zinc fingerSimilarity: Contains 1 SET domain |
Function
for SMYD4 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
|
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 SMYD4 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SMYD4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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| |  | GenScript: all cDNA clones in your preferred vector: SMYD4 (NM_052928) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SMYD4 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SMYD4 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SMYD4 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0008270 | zinc ion binding |
IEA | -- |
SMYD4 for ontologies About GeneDecksing
|
Pathways & Interactions
for SMYD4 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 SMYD4
STRING Interaction
Network Preview (showing 1 interactants - click image to see more details)
1 Interacting protein for SMYD4 (Q8IYR23 ENSP000003043604) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for SMYD4 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 SMYD4
Search CenterWatch for drugs/clinical trials and news about SMYD4
|
Transcripts
for SMYD4 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 SMYD4 gene: NM_052928.2 Unigene Cluster for SMYD4: SET and MYND domain containing 4 Hs.514602 [show with all ESTs]Unigene Representative Sequence: NM_0529287 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000305513(uc002ftm.4) ENST00000491788(uc002ftn.1) ENST00000476292
ENST00000570368 ENST00000571854 ENST00000573937 ENST00000576633
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SMYD4 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SMYD4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: SMYD4 (NM_052928) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SMYD4 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SMYD4 |
Additional cDNA sequence: AK057769.1 AK095369.1 AL137345.1 BC035077.2 5 DOTS entries: DT.97768980 DT.407661 DT.100745153 DT.102824463 DT.95264472 1 AceView cDNA sequence: BX644502
GeneLoc Exon Structure
5 Alternative Splicing Database (ASD) splice patterns (SP) for SMYD4 About this scheme
| ExUns: | 1a | · | 1b | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5a | · | 5b | ^ | 6 | ^ | 7a | · | 7b | · | 7c | ^ | 8 | ^ | 9 | ^ | 10 | ^ | 11a | · | 11b | ^ | 12a | · | 12b | · | 12c | ^ | 13 |
|---|
|
| SP1: | | | | | - | | | | - | | | | | | | | | | | | | | | | | | | | - | | | | | | | | - | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - | | | | | | | | | | | | |
| SP3: | | | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for SMYD4
|
Expression
for SMYD4 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
| SMYD4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See SMYD4 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SMYD4
SOURCE GeneReport for Unigene cluster: Hs.514602
SABiosciences Custom PCR Arrays for SMYD4
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SMYD4
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SMYD4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SMYD4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SMYD4 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SMYD4 |
Orthologs
for SMYD4 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 eukaryotes.
Orthologs for SMYD4 gene from 7/20 species (see all 20) About this table
ENSEMBL Gene Tree for SMYD4 (if available)
TreeFam Gene Tree for SMYD4 (if available) |
Paralogs
for SMYD4 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SMYD4 gene
- SMYD12 SMYD22 SMYD32
18/33 SIMAP similar genes for SMYD4 using alignment to 5 protein entries: SMYD4_HUMAN (see all proteins)
(see all similar genes):HDGFRP2 LSM12 EEF1E1 EIF3G KIAA0101 C12orf76
KIAA1651 ARL6IP5 IK MRPL45 COQ5 EIF3K
GBGT1 FRG1 ARIH1 CALCOCO2 PARK2 ZNF620
SMYD4 for paralogs About GeneDecksing
|
Genomic Variants
for SMYD4 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
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 17 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for SMYD4 (1682779 - 1733928 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for SMYD4
2 CNVs: 32148 7142 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SMYD4 |
|
Disorders
/ Diseases
for SMYD4 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
|
SMYD4 for disorders About GeneDecksing
3  diseases for SMYD4: About MalaCardshepatocellular carcinoma breast cancer carcinoma
Human Genome Epidemiology (HuGE) Navigator: SMYD4 (1 document)
Export disorders for SMYD4 gene to outside databases
|
Publications
for SMYD4 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 SMYD4 gene, integrated from 9 sources (see all 12):
(articles sorted by number of sources associating them with SMYD4) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins. (PubMed id 11572484)1, 2, 3 Nagase T....Ohara O. (2001)
- 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)
- Exome sequencing identifies frequent mutation of the SWI/SNF complex gene PBRM1 in renal carcinoma. (PubMed id 21248752)2 Varela I....Futreal P.A. (2011)
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
- Common variants in the calcium-sensing receptor gene are associated with total serum calcium levels. (PubMed id 20705733)1 O'Seaghdha C.M....KAPttgen A. (2010)
- Identification of Smyd4 as a potential tumor suppress or gene involved in breast cancer development. (PubMed id 19383909)1 Hu L....Zhu Y.J. (2009)
- Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
- Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for SMYD4 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SMYD4 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SMYD4 gene
(According to HUGE)
About This Section
| |
Specialized Databases showing SMYD4 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 SMYD4 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SMYD4 gene:
Search GeneIP for patents involving SMYD4
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SMYD4 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
|
 | |
 | |
 |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SMYD4 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SMYD4 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SMYD4 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SMYD4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SMYD4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SMYD4 |
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| |  |  |  |  | | | | |
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 | | | SMYD4 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SMYD4 |
|  |  |  | | | | Search ThermoFisher Antibodies for SMYD4 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SMYD4 |
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