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["Supplementary Table 5. CNVs Involving Intron 1"]
["Gene","Type","CN State","CNV Size (Kb)","Marker Count","ID #a","Protein Annotation","CGIb","with enhancers","with active TSS","methylC-seqc ovary vs testis","RNA-Seqd fetal vs adult ovary","H3K27Ace","TFM total","chromHMMf Ovary","Full Location"]
["CHD7","Gain",4,2,3,"D9","none ","none ","none ","none ","similar ","different ","none ",2,"none","chr8:61644699-61646540"]
["SOS1","Loss",1,18,8,"D16","helix ","none",6,"none ","similar ","different ","yes (5)",8,"weak","chr2:39312217-39330377"]
["NOTCH2","Loss",1,29,38,"D41","signal peptide","none ",6,1,"mC++ testis (aTSS)","different ","yes (multiple)",7,"weak","chr1:120578026-120606931"]
["ROCK2","Loss",1,28.091,15,"D1","none ","none ","multiple ",1,"mC+ tes (aTSS)","different","yes ","multiple ","weak ","chr2:11443435-11471526"]
["GRIP1 ","Loss",1,23.926,15,"D15","none ","none ","none ","none ","different ","different ","yes ",11,"WRP","chr12:67006499-67030425"]
["RAF1","Loss",1,8.433,11,"D7","none ","none ","multiple ","none ","similar","different","yes ",5,"weak","chr3:12682736-12691169"]
["DHRSX","Gain",3,9.178,48,"D36","DHRSX","none",1,"none ","mC++ ov","different","yes ",4,"weak","chrX:2373366-2382544"]
["DHRSX","Gain",3,16.755,95,"D45","DHRSX","none ",2,"none ","mC++ ov","different","yes ",8,"weak ","chrX:2365676-2382431"]
["DHRSX","Loss",1,1.195,15,"D32","DHRSX","none","none ","none ","similar ","RS+ adult","yes ",1,"none","chrX:2391021-2392216"]
["DHRSX","Loss",1,3.006,35,"D25","DHRSX","none","none ","none ","similar ","RS+ adult","yes ",2,"none","chrX:2390926-2393932"]
["DHRSX","Loss",1,2.047,28,"D41","DHRSX","none","none ","none ","similar ","RS+ adult","yes ",2,"none","chrX:2391217-2393264"]
["DHRSX","Loss",1,5.369,37,"D25","DHRSX","none",1,"none ","mC++ ov","different","yes ",3,"weak","chrX:2368137-2373506"]
["DHRSX","Loss",1,1.858,12,"D51","DHRSX","none",1,"none ","mC++ ov","different","yes ",3,"weak","chrX:2368250-2370108"]
["DHRSX","Loss",1,14.427,84,"D26","DHRSX","none ",2,"none ","mC++ ov","different","yes ",8,"weak ","chrX:2368117-2382544"]
["DHRSX","Loss",1,14.715,83,"D48","DHRSX","none ",2,"none ","mC++ ov","different","yes ",8,"weak ","chrX:2368251-2382966"]
["CAMK1D","Loss",1,6,8,"D20","protein kinase, ATP binding site, beta","none ","none ","none ","similar ","RS+ adult","yes (1)",3,"none ","chr10:12528491-12534298"]
["CTNNB1","Gain",3,12.571,59,"D14","none ","none ","multiple ","multiple","similar","different ","yes ",4,"weak","chr3:41243113-41255684"]
["RAF1","Gain",4,3.837,11,"D7","none ","none ","none ","none ","similar","different","none ","none ","weak ","chr3:12691275-12695112"]
["TP63","Loss",1,4.149,8,"D16","transcription activation ","none","none ","none","similar","RS+ adult","none ",3,"none (tRNA-lys-AAG)","chr3:189373785-189377934"]
["FAM167A-AS1 (C8orf12)","Loss",1,15.888,18,"D13","none ","none ","none ","none ","different ","different","none ",2,"WRP","chr8:11218892-11234780"]
["FAM167A-AS1 (C8orf12)","Loss",1,19.164,20,"D14","none ","none ","none ","none ","different ","different","none ",2,"WRP","chr8:11215616-11234780"]
["TP63","Loss",1,11.13,34,"D22","transcription activation ","none","none ","none","similar","different","none ",2,"none","chr3:189360834-189371964"]
["TP63","Loss",1,11.223,36,"D45","transcription activation ","none","none ","none","similar","different","none ",2,"none","chr3:189360741-189371964"]
["TP63","Loss",1,8.299,32,"D38","transcription activation ","none","none","none","similar","RS+ adult","none ",2,"none","chr3:189363665-189371964"]
["TP63","Loss",1,8.299,32,"D52","transcription activation ","none","none","none","similar","RS+ adult","none ",2,"none","chr3:189363665-189371964"]
["TP63","Loss",1,3.886,34,"D42","transcription activation ","none","none ","none","similar","different","none ","none ","none","chr3:189360741-189364627"]
["DMD","Gain",2,3.874,13,"D36","acting binding ","none","none ","none ","similar","different","none ",2,"none ","chrX:33071116-33074990"]
["DMD","Gain",3,5.571,21,"D34","actin binding ","none","none ","none ","similar","different","none ","none ","none ","chrX:33287428-33292999"]
["DMD","Gain",2,5.569,20,"D30","none ","none","none ","none ","similar","different","none ","none ","none ","chrX:33287430-33292999"]
["DMD","Loss",1,4.061,12,"D29","actin binding ","none","none ","none ","similar","different","none ","none ","none ","chrX:33112981-33117042"]
["AR","Gain",2,8.381,16,"D31","none ","none ","none ","none","similar","different ","none ","none","none","chrX:66846219-66854600"]
["BNC2","Gain",4,1.93,5,"D36","none","none",1,"none","similar","RS++ adult","none",1,"weak","chr9:16847790-16849720"]
["BNC2","Loss",1,3.702,12,"D12, D15","none ","none","none ","none","similar","RS+ adult","none","none ","weak","chr9:16749753-16753455"]
["BNC2","Loss",1,3.702,12,"D15","none ","none","none ","none","similar","RS+ adult","none","none ","weak","chr9:16749753-16753455"]
["ahighlighted ID# recurrent CNVs in 2 patients "]
["bCGI - CpG island"]
["cmC - methyl-C profile for DNA (CGI methylation) - mC+ (present)"]
["dRNA-seq - RS++ (higher), RS+ (present), RS- (absent) predicted RNA expression "]
["eentry in parenthesis - number or location of peaks"]
["fChromHMM - ChIP Seq data for predicting chromatin states (strong or weak transcription; WRP/RP, weak/repressed polycomb)"]
["hND - no data in UniProt database for development of reproductive and urogenital structures"]