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SETD9 Gene

protein-coding   GIFtS: 37
GCID: GC05P056206

SET Domain Containing 9

(Previous name: chromosome 5 open reading frame 35)
(Previous symbol: C5orf35)
  Search for SETD9
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
SET Domain Containing 91 2
C5orf351 2 3
Chromosome 5 Open Reading Frame 351
SET Domain-Containing Protein 92
EC 2.1.1.-3

External Ids:    HGNC: 285081   Entrez Gene: 1333832   Ensembl: ENSG000001555427   UniProtKB: Q8NE223   

Export aliases for SETD9 gene to outside databases


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SETD9 Gene:
SETD9 (SET domain containing 9) is a protein-coding gene. GO annotations related to this gene include methyltransferase activity.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000005.10  NT_034772.7  NC_018916.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for SETD9
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SETD9


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 5q11.2   Ensembl cytogenetic band:  5q11.2   HGNC cytogenetic band: 5q11.2

SETD9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SETD9 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05P056206:  view genomic region     (about GC identifiers)

Start:
56,205,087 bp from pter      End:
56,221,359 bp from pter
Size:
16,273 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SETD9_HUMAN, Q8NE22 (See protein sequence)
Recommended Name: SET domain-containing protein 9  
Size: 299 amino acids; 34095 Da
Secondary accessions: F5H713
Alternative splicing: 2 isoforms:  Q8NE22-1   Q8NE22-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SETD9: NX_Q8NE22

Explore proteomics data for SETD9 at MOPED


See SETD9 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (2 alternative transcripts): 
NP_001165461.1  NP_714917.2  

ENSEMBL proteins: 
 ENSP00000285947   ENSP00000398449   ENSP00000406183   ENSP00000442886  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro protein domain:
 IPR001214 SET_dom

Graphical View of Domain Structure for InterPro Entry Q8NE22

ProtoNet protein and cluster: Q8NE22

UniProtKB/Swiss-Prot: SETD9_HUMAN, Q8NE22
Similarity: Belongs to the class V-like SAM-binding methyltransferase superfamily
Similarity: Contains 1 SET domain


SETD9 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Enzyme Number (IUBMB): EC 2.1.1.-1

     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0008168methyltransferase activity IEA--
     
SETD9 for ontologies           About GeneDecksing


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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SETD9
Interactions:

    Search GeneGlobe Interaction Network for SETD9

STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

Selected Interacting proteins for SETD9 (ENSP000002859474) via UniProtKB, MINT, STRING, and/or I2D (see all 6)
InteractantInteraction Details
GeneCardExternal ID(s)
RORCENSP000003270254STRING: ENSP00000327025
SIKE1ENSP000003585414STRING: ENSP00000358541
SNRKENSP000002960884STRING: ENSP00000296088
TAS1R1ENSP000003318674STRING: ENSP00000331867
ELAVL1ENSP000003852694STRING: ENSP00000385269
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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for SETD9



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for SETD9 gene (2 alternative transcripts): 
NM_001171990.1  NM_153706.3  

Unigene Cluster for SETD9:

SET domain containing 9
Hs.85950  [show with all ESTs]
Unigene Representative Sequence: AK093147
10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000475908 ENST00000285947(uc003jqx.3) ENST00000498322 ENST00000418299
ENST00000480414 ENST00000463805 ENST00000472636 ENST00000423328 ENST00000477359
ENST00000541720(uc021xyu.1)
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Additional mRNA sequence: 

AK093147.1 AK309152.1 BC036528.1 

5 DOTS entries:

DT.105460  DT.70103748  DT.99942003  DT.206555  DT.97861281 

Selected AceView cDNA sequences (see all 45):

AA621479 AI989350 BP342016 AA758553 AK093147 CR625068 AF114126 BC036528 
BG721885 BG719045 AI685269 BI093176 BP336535 BG574944 NM_153706 BG703195 
AI082667 BQ429063 AW169924 AI208292 AA194646 AI239728 BX094293 BX394558 

GeneLoc Exon Structure

Selected Alternative Splicing Database (ASD) splice patterns (SP) for SETD9 (see all 7)    About this scheme

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b
SP1:                          -     -     -                 -                                       
SP2:                          -     -     -     -     -     -                                       
SP3:              -     -     -     -     -     -           -                                       
SP4:                          -     -     -     -           -                                       
SP5:                                      -     -     -     -                                       


ECgene alternative splicing isoforms for SETD9

(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SETD9 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: ATAAAAGCTA
SETD9 Expression
About this image

SETD9 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SETD9 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.85950
    Custom PCR Arrays for SETD9
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SETD9

(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)
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This gene was present in the common ancestor of chordates.

Orthologs for SETD9 gene from Selected species (see all 11)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
dog
(Canis familiaris)
Mammalia SETD91 SET domain containing 9 93.31(n)
92.64(a)
  608050  XM_844651.3  XP_849744.1 
chicken
(Gallus gallus)
Aves CZH5ORF351 chromosome Z open reading frame, human C5orf35 67.12(n)
66.33(a)
  770222  XM_004937248.1  XP_004937305.1 
lizard
(Anolis carolinensis)
Reptilia SETD96
SET domain containing 9
68(a)
1 ↔ 1
2(1876665-1885644)
tropical clawed frog
(Xenopus tropicalis)
Amphibia setd91 SET domain containing 9 65.86(n)
64.83(a)
  100379905  XM_002940234.2  XP_002940280.1 
zebrafish
(Danio rerio)
Actinopterygii Dr.166432 Transcribed sequences 73.03(n)    BI979940.1 


ENSEMBL Gene Tree for SETD9 (if available)
TreeFam Gene Tree for SETD9 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SETD9 (see all 263)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 5 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1999487951,2
--56203211(+) ACAAT-/ACTC  
        
ACACA
2 -- us2k10--------
rs1448521101,2
--56203250(+) CATACA/GCGGGT 2 -- us2k10--------
rs1841707611,2
--56203388(+) TACCAC/TGTTTC 2 -- us2k10--------
rs1479358401,2
--56203441(+) GATTAA/CAATTA 2 -- us2k10--------
rs1455250961,2
C--56203480(+) AGAAA-/AAGAAGGT 2 -- us2k10--------
rs2014026461,2
C--56203537(+) AATAT-/AAAAAA 2 -- us2k10--------
rs560222291,2
C--56203677(+) CCACTC/TATTAA 2 -- us2k10--------
rs2529251,2
C,F,H--56203773(-) AGAGGC/TTTTCT 2 -- us2k121Minor allele frequency- T:0.34NS EA NA CSA WA 2319
rs1932211051,2
--56203844(+) TCTTTA/CTTTCT 2 -- us2k10--------
rs786008151,2
C,F--56203871(+) TTAGTC/TCCGCA 2 -- us2k11Minor allele frequency- T:0.03NA 120

HapMap Linkage Disequilibrium report for SETD9 (56205087 - 56221359 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for SETD9: --
Human Gene Mutation Database (HGMD): SETD9
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing SETD9
DNA2.0 Custom Variant and Variant Library Synthesis for SETD9

(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.)
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SETD9 for disorders           About GeneDecksing


Export disorders for SETD9 gene to outside databases

(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)
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PubMed articles for SETD9 gene integrated from 10 sources:
(articles sorted by number of sources associating them with SETD9)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Uncovering the human methyltransferasome. (PubMed id 20930037)1, 3 Petrossian T.C. and Clarke S.G. (amp 2011)
  2. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (EMBO J. 2009)
  3. The DNA sequence and comparative analysis of human chromosome 5. (PubMed id 15372022)2 Schmutz J.... Rubin E.M. (Nature 2004)
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  5. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
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, Kegg, and/or H-InvDB)
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Entrez Gene: 133383 HGNC: 28508 AceView: MGC33648 Ensembl:ENSG00000155542 euGenes: HUgn133383
ECgene: SETD9 H-InvDB: SETD9

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for SETD9 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SETD9 gene:
Search GeneIP for patents involving SETD9

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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 Browse Antibodies at Cloud-Clone Corp.
 Browse ELISAs at Cloud-Clone Corp.
 Browse CLIAs at Cloud-Clone Corp.



 Browse ESI BIO Cell Lines and PureStem Progenitors for SETD9
 Gene Synthesis
 Protein Engineering
 Variant Library Synthesis
 Codon Optimization
 Protein Production and Purification
 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SETD9
 SwitchGear 3'UTR luciferase reporter plasmids for SETD9
 Browse SwitchGear Promoter luciferase reporter plasmids for SETD9
 Search ThermoFisher Antibodies for SETD9
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SETD9
 inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SETD9
 inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for SETD9
 LSBio Antibodies in human, mouse, rat for SETD9
Customized transgenic rodents for:
 Humanization
 Biomarker expression
 Off-target effect monitoring
 Translational medicine
 Tissue-specific gene expresssion
 Time-controlled gene expresssion
 Browse compounds at ApexBio
       
GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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