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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TSNAX-DISC1 Gene

RNA gene   GIFtS: 16
GCID: GC01P231665

TSNAX-DISC1 Readthrough (NMD Candidate)

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 4

Aliases
TSNAX-DISC1 Readthrough (NMD Candidate)1 2

External Ids:    HGNC: 491771   Entrez Gene: 1003034532   
ORGUL members:    fRNAdb10:FR378010      
NCBI13:AF222983    
NONCODE14:u1056 n408231 n408230 n408234 n1114 see all 11      
Rfam:RF02102    

Export aliases for TSNAX-DISC1 gene to outside databases

Previous GC identifers: GC00U928277 GC01U902499 GC01P202147


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for TSNAX-DISC1 Gene:
This gene represents naturally occurring read-through transcription between the neighboring TSNAX
(translin-associated factor X) and DISC1 (disrupted in schizophrenia 1) genes on chromosome 1. Alternative
splicing results in multiple transcript variants, all of which are candidates for nonsense-mediated mRNA decay
(NMD) and are unlikely to be protein-coding. These alterations in gene processing may be associated with risk for
psychiatric illness, most notably, schizophrenia. (provided by RefSeq, Nov 2010)

GeneCards Summary for TSNAX-DISC1 Gene: 
TSNAX-DISC1 (TSNAX-DISC1 readthrough (NMD candidate)) is an RNA gene, and is affiliated with the lncRNA class. Diseases associated with TSNAX-DISC1 include schizophrenia.



fRNAdb sequence ontologies for TSNAX-DISC1 - the ORGUL cluster for this gene includes several descriptions:
-
antisense_RNA - Antisense RNA is RNA that is transcribed from the coding, rather than the template, strand of DNA. It is therefore complementary to mRNA.

(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for TSNAX-DISC1
         Other transcription factors

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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TSNAX-DISC1


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

Entrez Gene cytogenetic band: 1q42.1   HGNC cytogenetic band: 1q42.2

TSNAX-DISC1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TSNAX-DISC1 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P231665:  view genomic region     (about GC identifiers)

Start:
231,664,399 bp from pter      End:
232,177,018 bp from pter
Size:
512,620 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for TSNAX-DISC1

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
  --

(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,
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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

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(Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
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Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TSNAX-DISC1

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
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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,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
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Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
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miRNA
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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™, 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

Expression evidence for TSNAX-DISC1:none

TSNAX-DISC1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
TSNAX-DISC1 Expression
About this image


Genevestigator expression for TSNAX-DISC1
    SABiosciences Custom PCR Arrays for TSNAX-DISC1
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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)
About This Section
  --

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
  --

(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) 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

10/800 SNPs in TSNAX-DISC1 are shown (see all 800)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1830381631,2
--231702786(+) CATTTC/TCATCA 8 -- int10--------
rs1173210351,2
C,F--231702791(+) TCATCA/TTGTTG 8 -- int11Minor allele frequency- T:0.20EA 120
rs1887240011,2
--231702883(+) ACTGCA/GCGCAG 8 -- int10--------
rs783677051,2
C,F--231702916(+) TACACA/GTTGAG 8 -- int11Minor allele frequency- G:0.08EA 120
rs1932834451,2
--231702924(+) GAGTGC/TGCTGG 8 -- int10--------
rs66629261,2
C,F,A,H--231702925(+) AGTGCC/GCTGGG 8 -- int122Minor allele frequency- N:0.00NS EA NA WA CSA 999
rs1430068311,2
--231703095(+) ATAACC/TGAAAG 8 -- int10--------
rs1131623181,2
C,F--231703177(+) ACATAA/C/GAATAA 8 -- int12CSA WA 120
rs1149887851,2
F--231703205(+) GAATAC/TGTACC 8 -- int11Minor allele frequency- T:0.01WA 118
rs1135427461,2
F--231703206(+) AATACG/ATACCA 8 -- int12Minor allele frequency- A:0.50CSA 4

HapMap Linkage Disequilibrium report for TSNAX-DISC1 (231664399 - 231914399 bp, first 250kb of TSNAX-DISC1)

Structural Variations
     Database of Genomic Variants (DGV) 10/34 variations for TSNAX-DISC1 (see all 34):    About this table     
Variant IDTypeSubtypePubMed ID
esv2656516CNV Deletion23128226
esv2657352CNV Deletion23128226
esv2724872CNV Deletion23290073
esv2724894CNV Deletion23290073
esv2724917CNV Deletion23290073
esv2668388CNV Deletion23128226
esv2724905CNV Deletion23290073
esv2724883CNV Deletion23290073
esv2661657CNV Deletion23128226
esv2672018CNV Deletion23128226

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
OMIM information: 606271 605210    
2 diseases for TSNAX-DISC1:    About MalaCards
schizophrenia    


TSNAX-DISC1 for disorders           About GeneDecksing


Export disorders for TSNAX-DISC1 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)
About This Section

PubMed articles for TSNAX-DISC1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TSNAX-DISC1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Association between SNP-genotype and chronic lymphocy tic leukemia outcome in a randomized chemotherapy trial. (PubMed id 21659360)1 Wade R....Houlston R.S. (2011)
  2. Impact of DISC1 variation on neuroanatomical and neur ocognitive phenotypes. (PubMed id 21483430)1 Carless M.A....Blangero J. (2011)
  3. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (2010)
  4. DISC1 splice variants are upregulated in schizophreni a and associated with risk polymorphisms. (PubMed id 19805229)1 Nakata K....Kleinman J.E. (2009)
  5. Reduced expression of the Kinesin-Associated Protein 3 (KIFAP3) gene increases survival in sporadic amyotrophic lateral sclerosis. (PubMed id 19451621)1 Landers J.E....Brown R.H. (2009)
  6. Genome-wide association study implicates a chromosome 12 risk locus for late-onset Alzheimer disease. (PubMed id 19118814)1 Beecham G.W....Pericak-Vance M.A. (2009)
  7. Association of DISC1 and TSNAX genes and affective disorders in the depression case-control (DeCC) and bipolar affective case-control (BACCS) studies. (PubMed id 19255581)1 Schosser A....McGuffin P. (2009)
  8. Chromosomal location and genomic structure of the human translin- associated factor X gene (TRAX; TSNAX) revealed by intergenic splicing to DISC1, a gene disrupted by a translocation segregating with schizophrenia. (PubMed id 10945471)1 Millar J.K.... Porteous D.J. (2000)
  9. (PubMed id 10814723)10 
  10. (PubMed id 15608158)10 

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
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(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 100303453 HGNC: 49177 euGenes: HUgn100303453 ECgene: TSNAX-DISC1 H-InvDB: TSNAX-DISC1

(According to HUGE)
About This Section
  --

(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
  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for TSNAX-DISC1 gene:
Search GeneIP for patents involving TSNAX-DISC1

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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, 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
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