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Table 2 Distant gene fusions with multiple read support

From: Deep RNA sequencing analysis of readthrough gene fusions in human prostate adenocarcinoma and reference samples

Samples Donor Gene (RefSeq) Exon 5' chr 3' chr Acceptor Gene (RefSeq) Exon Distance Notes
Long distance         
HBR(2) IQCJ (NM_001042705) 4/5 +3 +3 SCHIP1 (NM_014575) 2/8 501759 5
N3(1), T2(5), T3(15) TMPRSS2 (NM_005656) 1/14 -21 -21 ERG (NM_004449) 4/11 3062463 7
Scrambled exons         
UHR(2) RPS6KB1 (NM_003161) 4/15 +17 +17 TMEM49 (NM_030938) 12/12 74936 3,6
UHR(2) GCN1L1 (NM_006836) 2/58 -12 -12 MSI1 (NM_002442) 12/15 157217  
Inversions         
UHR(7) GAS6 (NM_000820) 12/15 +13 -13 RASA3 (NM_007368) 23/24 185397 6
UHR(2) TGOLN2 (NM_006464) 3/4 -2 +2 USP39 (NM_006590) 11/13 320033  
UHR(4) ARFGEF2 (NM_006420) 1/39 +20 -20 SULF2 (NM_018837) 3/21 1172861 2,4,6
UHR(2) LITAF (NM_001136472) 1/4 -16 +16 DECR2 (NM_020664) 2/9 11193286  
N1(2) REV1 (NM_016316) 3/23 -2 +2 CPSF3 (NM_016207) 10/18 89944295  
Translocations         
UHR(4) BCAS4 (NM_017843) 1/6 +20 +17 BCAS3 (NM_017679) 23/24   3,4,6
UHR(3) BCR (NM_004327) 14/23 +22 +9 ABL1 (NM_005157) 2/11   1,6
N1(2) CAMTA1 (NM_015215) 3/23 +1 -12 SPPL3 (NM_139015) 3/11   
UHR(2) DYNC1H1 (NM_001376) 24/78 +14 +12 EIF4B (NM_001417) 8/15   
T3(2) MBTPS1 (NM_003791) 22/23 -16 +15 SERF2 (NM_001018108) 3/3   
N2(2) OGT (NM_181672) 6/22 +X -5 RBM22 (NM_018047) 4/11   
N1(2) ROR2 (NM_004560) 1/9 -9 -17 USP36 (NM_025090) 2/20   
T3(2) SEC31A (NM_014933) 1/27 -4 -6 C6orf62 (NM_030939) 2/5   7
UHR(2) TIMM9 (NM_012460) 3/6 -14 -8 PRKDC (NM_006904) 26/86   
N1(2) ZDHHC8 (NM_013373) 4/11 +22 +19 UBL5 (NM_024292) 3/5   
  1. Each sample shows the number of supporting reads for the given fusion in parentheses. Exon values refer to the exon number and total number of exons in the given RefSeq transcript. Notes: (1) Known fusion in chronic myelogenous leukemia. (2) Observed in [53]. (3) Observed in [54]. (4) Observed in [55]. (5) Observed in [38]. (6) Observed in [17]. (7) Confirmed by PCR in this study.