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SOX2-OT (SOX2 overlapping transcript)

Identity

Alias_namesSOX2OT
SOX2 overlapping transcript (non-protein coding)
Alias_symbol (synonym)DKFZp761J1324
NCRNA00043
Other alias
HGNC (Hugo) SOX2-OT
LocusID (NCBI) 347689
Atlas_Id 54656
Location 3q26.33  [Link to chromosome band 3q26]
Location_base_pair Starts at 181175144 and ends at 181742225 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
ATP11B (3q26.33) / SOX2-OT (3q26.33)OSCP1 (1p34.3) / SOX2-OT (3q26.33)PTGES (9q34.11) / SOX2-OT (3q26.33)
SNX29 (16p13.13) / SOX2-OT (3q26.33)SOX2-OT (3q26.33) / ATL3 (11q12.3)SOX2-OT (3q26.33) / OSCP1 (1p34.3)
SOX2-OT (3q26.33) / SNX29 (16p13.13)SOX2-OT (3q26.33) / ST14 (11q24.3)SOX2-OT (3q26.33) / TMEM144 (4q32.1)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 6 ]
  Lung: Translocations in Squamous Cell Carcinoma
t(1;3)(p34;q26) SOX2-OT/OSCP1
t(1;3)(p34;q26) OSCP1/SOX2-OT
t(3;3)(q26;q26) ATP11B/SOX2-OT
t(3;11)(q26;q13) SOX2-OT/ATL3
t(3;11)(q26;q24) SOX2-OT/ST14

External links

Nomenclature
HGNC (Hugo)SOX2-OT   20209
Cards
Entrez_Gene (NCBI)SOX2-OT  347689  SOX2 overlapping transcript
AliasesNCRNA00043; SOX2OT
GeneCards (Weizmann)SOX2-OT
Ensembl hg19 (Hinxton) [Gene_View]
Ensembl hg38 (Hinxton) [Gene_View]  chr3:181175144-181742225 [Contig_View]  SOX2-OT [Vega]
TCGA cBioPortalSOX2-OT
AceView (NCBI)SOX2-OT
Genatlas (Paris)SOX2-OT
WikiGenes347689
SOURCE (Princeton)SOX2-OT
Genetics Home Reference (NIH)SOX2-OT
Genomic and cartography
GoldenPath hg38 (UCSC)SOX2-OT  -     chr3:181175144-181742225 +  3q26.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SOX2-OT  -     3q26.33   [Description]    (hg19-Feb_2009)
EnsemblSOX2-OT - 3q26.33 [CytoView hg19]  SOX2-OT - 3q26.33 [CytoView hg38]
Mapping of homologs : NCBISOX2-OT [Mapview hg19]  SOX2-OT [Mapview hg38]
OMIM616338   
Gene and transcription
Genbank (Entrez)AK022826 AL157425 BC016393 BC041898 DA250340
RefSeq transcript (Entrez)
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SOX2-OT
Cluster EST : UnigeneHs.654932 [ NCBI ]
CGAP (NCI)Hs.654932
Gene ExpressionSOX2-OT [ NCBI-GEO ]   SOX2-OT [ EBI - ARRAY_EXPRESS ]   SOX2-OT [ SEEK ]   SOX2-OT [ MEM ]
Gene Expression Viewer (FireBrowse)SOX2-OT [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)347689
GTEX Portal (Tissue expression)SOX2-OT
Protein : pattern, domain, 3D structure
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)SOX2-OT
DMDM Disease mutations347689
Blocks (Seattle)SOX2-OT
IPIIPI00796801   
Protein Interaction databases
BioGRIDSOX2-OT
STRING (EMBL)SOX2-OT
ZODIACSOX2-OT
Ontologies - Pathways
Huge Navigator SOX2-OT [HugePedia]
snp3D : Map Gene to Disease347689
BioCentury BCIQSOX2-OT
ClinGenSOX2-OT
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD347689
Chemical/Pharm GKB GenePA134874116
Clinical trialSOX2-OT
Miscellaneous
canSAR (ICR)SOX2-OT (select the gene name)
Probes
Litterature
PubMed27 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSOX2-OT
EVEXSOX2-OT
GoPubMedSOX2-OT
iHOPSOX2-OT
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Wed Feb 28 13:38:59 CET 2018
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