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ADAMTS9-AS2 Gene

RNA gene   GIFtS: 21
GCID: GC03P064671

ADAMTS9 Antisense RNA 2

(Previous name: ADAMTS9 antisense RNA 2 (non-protein coding))
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(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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Subcategory (RNA class): antisense

Quality score for this RNA gene is 3

Aliases
ADAMTS9 Antisense RNA 21 2
ADAMTS9 Antisense RNA 2 (Non-Protein Coding)1

External Ids:    HGNC: 424351   Entrez Gene: 1005070982   Ensembl: ENSG000002416847   

Export aliases for ADAMTS9-AS2 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 ADAMTS9-AS2 Gene:
ADAMTS9-AS2 (ADAMTS9 antisense RNA 2) is an RNA gene, and is affiliated with the antisense RNA class.


(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 at NCBI GenBank:
NC_000003.11  NC_018914.2  NT_022517.19  
Regulatory elements:
   Search for regulatory transcription factor binding sites for ADAMTS9-AS2
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ADAMTS9-AS2


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

Ensembl cytogenetic band:  3p14.1   HGNC cytogenetic band: 3p14.1

ADAMTS9-AS2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ADAMTS9-AS2 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P064671:  view genomic region     (about GC identifiers)

Start:
64,670,546 bp from pter      End:
64,997,143 bp from pter
Size:
326,598 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for ADAMTS9-AS2

(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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
LNCRNA: Long non-coding RNAs

  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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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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Interactions:

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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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(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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Unigene Cluster for ADAMTS9-AS2:

ADAMTS9 antisense RNA 2
Hs.660881  [show with all ESTs]
Unigene Representative Sequence: AL832788
4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000460833(antisense) ENST00000485174(antisense) ENST00000474768(antisense) ENST00000481312(antisense)
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Additional mRNA sequence: 

AK022125.1 AK022320.1 AK057923.1 AL832788.1 BC040632.1 NR_038264.1 

9 DOTS entries:

DT.75134066  DT.99946531  DT.40261928  DT.91958262  DT.120885982  DT.95257199  DT.97768090  DT.120886081 
DT.100645979 

GeneLoc Exon Structure


(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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Expression evidence for ADAMTS9-AS2:none

ADAMTS9-AS2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GGATGTATCT
ADAMTS9-AS2 Expression
About this image

ADAMTS9-AS2 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --

SOURCE GeneReport for Unigene cluster: Hs.660881
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(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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ENSEMBL Gene Tree for ADAMTS9-AS2 (if available)
TreeFam Gene Tree for ADAMTS9-AS2 (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 ADAMTS9-AS2 (see all 7419)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 3 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2074631731,2
Cuntested164882188(+) GTGATA/GATGAT 1 -- int10--------
rs76401911,2
C,F--64675526(+) TAAATC/TTTTTT 1 -- int15Minor allele frequency- T:0.14WA CSA NA EA 362
rs1995813471,2
--64675526(+) TAAAT-/CTTTTT 1 -- int10--------
rs104707061,2
C,F--64675799(+) TCTACC/TCATCT 1 -- int19Minor allele frequency- T:0.11NA WA CSA EA 370
rs1163674311,2
F--64675839(+) TTTACA/GTCTGT 1 -- int11Minor allele frequency- G:0.03WA 118
rs1156736491,2
F--64675991(+) CTTACC/TATGGG 1 -- int11Minor allele frequency- T:0.03WA 118
rs1922966961,2
--64676033(+) ACAGCG/TCTTTC 1 -- int10--------
rs1399862901,2
--64676076(+) ATAAGA/GATACC 1 -- int10--------
rs130922491,2
C,F--64676091(+) tctgaA/Gtaagt 1 -- int14Minor allele frequency- G:0.19NA 126
rs46885001,2
C,F,A,H--64676293(+) TATTGC/TATGTA 1 -- int133Minor allele frequency- N:0.00EA NA NS WA CSA 2961

HapMap Linkage Disequilibrium report for ADAMTS9-AS2 (64670546 - 64920546 bp, first 250kb of ADAMTS9-AS2)

Structural Variations
     Database of Genomic Variants (DGV) 9 variations for ADAMTS9-AS2:    About this table    
Variant IDTypeSubtypePubMed ID
esv2657718CNV Deletion23128226
nsv435772CNV Deletion17901297
nsv3853CNV Insertion18451855
nsv876890CNV Loss21882294
dgv5152n71CNV Loss21882294
nsv509829CNV Loss20534489
nsv523418CNV Loss19592680
nsv834718CNV Gain17160897
dgv1463e1CNV Complex17122850

Site Specific Mutation Identification with PCR Assays
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(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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(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 ADAMTS9-AS2 gene integrated from 10 sources:
(articles sorted by number of sources associating them with ADAMTS9-AS2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Seven new loci associated with age-related macular degeneration. (PubMed id 23455636)1 Fritsche L.G....Abecasis G.R. (Nat. Genet. 2013)
  2. Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits. (PubMed id 23754948)1 Randall J.C....Heid I.M. (PLoS Genet. 2013)
  3. White matter integrity as an intermediate phenotype: exploratory genome-wide association analysis in individuals at high risk of bipolar disorder. (PubMed id 23218918)1 Sprooten E....McIntosh A.M. (Psychiatry Res 2013)
  4. Genome-wide association analysis of age-at-onset in Alzheimer's disease. (PubMed id 22005931)1 Kamboh M.I....Lopez O.L. (Mol. Psychiatry 2012)
  5. Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women. (PubMed id 22589738)1 Fox C.S....Borecki I.B. (PLoS Genet. 2012)
  6. Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution. (PubMed id 20935629)1 Heid I.M....Lindgren C.M. (Nat. Genet. 2010)
  7. Meta-analysis of genome-wide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes. (PubMed id 18372903)1 Zeggini E....Altshuler D. (Nat. Genet. 2008)
  8. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)

(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: 100507098 HGNC: 42435 Ensembl:ENSG00000241684 euGenes: HUgn100507098 ECgene: ADAMTS9-AS2
H-InvDB: ADAMTS9-AS2

(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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(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for ADAMTS9-AS2 gene:
Search GeneIP for patents involving ADAMTS9-AS2

GeneCards and IP:
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