Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_2AW7_0011/A/12:22No text annotation
geometric
HL_5J7L_001
HL_89881.5
HL_2AW7_0031/A/158:163GNRA
geometric
HL_5B2T_003
HL_37824.7
HL_2AW7_0041/A/186:191GNRA
geometric
HL_7A0S_063
HL_37824.7
HL_2AW7_0061/A/259:267GNRA related
geometric
HL_5J7L_006
HL_84299.4
HL_2AW7_0071/A/296:301GNRA
geometric
HL_5J7L_007
HL_37824.7
HL_2AW7_0081/A/320:333No text annotation
geometric
HL_5J7L_008
HL_81205.3
HL_2AW7_0091/A/342:347UNCG
geometric
HL_4LFB_031
HL_34617.5
HL_2AW7_0101/A/379:384GNRA related
geometric
HL_3OXE_002
HL_04783.2
HL_2AW7_0111/A/419:424UNCG
geometric
HL_5J7L_030
HL_34617.5
HL_2AW7_0131/A/522:527No text annotation
geometric
HL_2ZNI_001
HL_75660.5
HL_2AW7_0141/A/617:623No text annotation
geometric
HL_5J7L_014
HL_10453.3
HL_2AW7_0161/A/726:731GNRA
geometric
HL_5J7L_016
HL_37824.7
HL_2AW7_0191/A/862:867GNRA
geometric
HL_4LFB_019
HL_37824.7
HL_2AW7_0201/A/897:902GNRA
geometric
HL_4V9F_048
HL_37824.7
HL_2AW7_0211/A/963:972No text annotation
geometric
HL_4V88_212
NA
HL_2AW7_0221/A/1012:1017GNRA
geometric
HL_4V88_210
NA
HL_2AW7_0231/A/1028:1033No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_2AW7_0241/A/1076:1081GNRA
geometric
HL_4V9F_015
HL_37824.7
HL_2AW7_0251/A/1089:1096T-loop related
geometric
HL_4LFB_025
HL_77436.5
HL_2AW7_0261/A/1134:1140No text annotation
geometric
HL_5J7L_025
HL_87954.2
HL_2AW7_0281/A/1265:1270GNRA
geometric
HL_5J7L_027
HL_37824.7
HL_2AW7_0291/A/1314:1323T-loop with 3 stacked bulged bases
geometric
HL_5J7L_028
HL_02887.3
HL_2AW7_0301/A/1356:1366No text annotation
geometric
HL_4LFB_030
HL_06226.4

Problematic loops

#loop idProblemSequence
HL_2AW7_002No text annotation
HL_2AW7_005UNCG
HL_2AW7_012No text annotation
HL_2AW7_015No text annotation
HL_2AW7_017No text annotation
HL_2AW7_018No text annotation
HL_2AW7_027GNRA
HL_2AW7_031UNCG
HL_2AW7_032GNRA variation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_2AW7_0011/A/30:32,
1/A/552:553
Single bulged G
geometric
IL_5J7L_001
IL_00225.13
IL_2AW7_0021/A/44:45,
1/A/396:398
Single bulged A
geometric
IL_5J7L_002
IL_31462.6
IL_2AW7_0031/A/47:52,
1/A/359:361
No text annotation
geometric
IL_5J7L_003
IL_14177.2
IL_2AW7_0041/A/54:56,
1/A/356:357
Minor groove platform
geometric
IL_5J7L_004
IL_51454.3
IL_2AW7_0051/A/63:66,
1/A/103:104
Multiple bulged bases
geometric
IL_5J7L_005
IL_82107.4
IL_2AW7_0061/A/67:69,
1/A/99:102
Minor groove platform with extra cWW
geometric
IL_5J7L_006
IL_90351.1
IL_2AW7_0081/A/75:76,
1/A/93:95
Single bulged G
geometric
IL_5J7L_395
IL_00225.13
IL_2AW7_0091/A/128:131,
1/A/231:233
Isolated non-canonical cWW pair
geometric
IL_5J7L_009
IL_57744.1
IL_2AW7_0101/A/132:136,
1/A/227:230
Minor groove platform related
geometric
IL_5J7L_010
IL_64231.5
IL_2AW7_0111/A/144:146,
1/A/176:178
Isolated cWH basepair
geometric
IL_3SJ2_003
IL_10167.6
IL_2AW7_0121/A/147:153,
1/A/168:175
tWH-tWH-tHW-tHW
geometric
IL_5J7L_012
IL_80604.6
IL_2AW7_0141/A/242:247,
1/A/277:284
Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
IL_46174.3
IL_2AW7_0151/A/249:252,
1/A/274:275
No text annotation
geometric
IL_5J7L_015
IL_47074.2
IL_2AW7_0161/A/292:293,
1/A/304:308
C-loop
geometric
IL_6CZR_125
NA
IL_2AW7_0171/A/367:369,
1/A/392:393
Single bulged U
geometric
IL_5J7L_017
IL_89505.4
IL_2AW7_0181/A/371:375,
1/A/389:390
C-loop
geometric
IL_4LFB_015
IL_03109.3
IL_2AW7_0191/A/375:376,
1/A/387:389
Single bulged G
geometric
IL_5J7L_019
IL_00225.13
IL_2AW7_0201/A/409:416,
1/A/427:433
No text annotation
geometric
IL_4LFB_017
IL_28026.3
IL_2AW7_0221/A/446:450,
1/A/483:488
tSH-tHW-tWW
geometric
IL_5J7L_022
IL_88269.4
IL_2AW7_0231/A/450:454,
1/A/479:483
No text annotation
IL_2AW7_0241/A/454:455,
1/A/477:479
Single stack bend
geometric
IL_5J7L_032
IL_26793.1
IL_2AW7_0251/A/458:459,
1/A/472:474
Single stack bend
geometric
IL_4V83_236
IL_90729.1
IL_2AW7_0261/A/460:462,
1/A/470:471
Single bulged A
geometric
IL_5FJC_001
IL_31462.6
IL_2AW7_0271/A/504:511,
1/A/540:541
SSU/LSU pseudoknot
geometric
IL_5J7L_024
IL_41203.4
IL_2AW7_0281/A/515:521,
1/A/528:536
Kink-turn related
geometric
IL_4V88_415
NA
IL_2AW7_0291/A/569:575,
1/A/880:881
No text annotation
geometric
IL_5J7L_026
IL_38186.6
IL_2AW7_0301/A/580:584,
1/A/757:761
tSH-tHW-tHS
geometric
IL_5J7L_027
IL_17136.7
IL_2AW7_0311/A/594:596,
1/A/644:645
Major groove platform
geometric
IL_1I6U_001
IL_48076.6
IL_2AW7_0321/A/597:598,
1/A/640:643
Major groove minor groove platform; mini C-loop
geometric
IL_5J7L_029
IL_68140.4
IL_2AW7_0331/A/605:612,
1/A/628:633
No text annotation
geometric
IL_5J7L_030
IL_78349.3
IL_2AW7_0341/A/654:655,
1/A/751:754
Major groove platform; stack outside cWW
geometric
IL_1KUQ_001
IL_50694.7
IL_2AW7_0351/A/658:659,
1/A/746:748
Single stack bend
geometric
IL_5VSU_003
IL_26793.1
IL_2AW7_0361/A/662:666,
1/A/740:743
Tandem non-canonical cWW pairs
geometric
IL_5J7L_033
IL_85033.2
IL_2AW7_0391/A/774:778,
1/A/804:805
Left turn
geometric
IL_4LFB_032
IL_29346.2
IL_2AW7_0411/A/887:894,
1/A/905:910
8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_5J7L_038
IL_41756.4
IL_2AW7_0421/A/922:923,
1/A/1393:1395
Single bulged A
geometric
IL_5J7L_039
IL_31462.6
IL_2AW7_0431/A/925:927,
1/A/1390:1391
Single bulged G
geometric
IL_5J7L_040
IL_00225.13
IL_2AW7_0441/A/933:935,
1/A/1380:1384
Minor groove platform
geometric
IL_5J7L_041
IL_47078.3
IL_2AW7_0451/A/953:954,
1/A/1226:1228
Minor groove platform
geometric
IL_4LFB_038
IL_51454.3
IL_2AW7_0461/A/993:997,
1/A/1044:1045
Minor groove platform
geometric
IL_5J7L_043
IL_47078.3
IL_2AW7_0471/A/998:999,
1/A/1041:1043
Single stack bend
geometric
IL_5TBW_375
NA
IL_2AW7_0481/A/1048:1050,
1/A/1208:1209
Single bulged U
geometric
IL_5J7L_046
IL_89505.4
IL_2AW7_0491/A/1052:1056,
1/A/1204:1206
Isolated cWS basepair
geometric
IL_4LFB_044
IL_76319.5
IL_2AW7_0501/A/1057:1058,
1/A/1199:1203
Minor groove platform
geometric
IL_4LFB_045
IL_95583.2
IL_2AW7_0511/A/1060:1061,
1/A/1195:1197
Single bulged A
geometric
IL_5J7L_049
IL_31462.6
IL_2AW7_0521/A/1061:1063,
1/A/1193:1195
Isolated non-canonical cWW pair
geometric
IL_5J7L_050
IL_28037.2
IL_2AW7_0531/A/1124:1128,
1/A/1144:1149
No text annotation
geometric
IL_5J7L_051
IL_06691.1
IL_2AW7_0541/A/1129:1132,
1/A/1142:1143
Minor groove platform
geometric
IL_5J7L_052
IL_15052.4
IL_2AW7_0551/A/1158:1161,
1/A/1175:1181
No text annotation
geometric
IL_5J7L_053
IL_42032.1
IL_2AW7_0561/A/1247:1253,
1/A/1284:1290
No text annotation
geometric
IL_5J7L_054
IL_09129.2
IL_2AW7_0571/A/1255:1258,
1/A/1277:1282
180 degree turn
geometric
IL_4LFB_052
IL_11344.2
IL_2AW7_0581/A/1259:1263,
1/A/1272:1276
Triple sheared
geometric
IL_5J7L_056
IL_17948.2
IL_2AW7_0591/A/1303:1308,
1/A/1329:1334
No text annotation
geometric
IL_4LFB_055
IL_85536.2

Problematic loops

#loop idProblemSequence
IL_2AW7_007Minor groove platform
IL_2AW7_013Minor groove platform
IL_2AW7_021No text annotation
IL_2AW7_037No text annotation
IL_2AW7_038Kink-turn
IL_2AW7_040tSH-tHW-tHS
IL_2AW7_060No text annotation
IL_2AW7_061No text annotation
IL_2AW7_062Isolated non-canonical cWW pair
IL_2AW7_063Not an internal loop
IL_2AW7_064Isolated non-canonical cWW pair
IL_2AW7_065Double sheared
IL_2AW7_066Triple sheared related
IL_2AW7_067Minor groove platform
IL_2AW7_068No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_2AW7_0011/A/826:829,
1/A/857:861,
1/A/868:874
No text annotation
geometric
J3_5J7L_004
J3_85054.4
J3_2AW7_0021/A/936:939,
1/A/1344:1350,
1/A/1372:1379
No text annotation
geometric
J3_4LFB_002
J3_25303.4
J3_2AW7_0031/A/943:946,
1/A/1235:1237,
1/A/1337:1340
No text annotation
geometric
J3_5J7L_005
J3_52655.4
J3_2AW7_0041/A/955:962,
1/A/973:984,
1/A/1221:1225
No text annotation
geometric
J3_4LFB_004
J3_83516.4
J3_2AW7_0051/A/990:993,
1/A/1045:1047,
1/A/1210:1215
No text annotation
geometric
J3_5J7L_007
J3_82572.1
J3_2AW7_0061/A/1003:1006,
1/A/1023:1027,
1/A/1034:1037
No text annotation
J3_2AW7_0071/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193
No text annotation
geometric
J3_5J7L_008
J3_08394.3
J3_2AW7_0081/A/1116:1118,
1/A/1155:1158,
1/A/1181:1184
No text annotation
geometric
J3_5J7L_010
J3_82365.4
J3_2AW7_0091/A/1237:1241,
1/A/1296:1303,
1/A/1334:1337
No text annotation
geometric
J3_5J7L_011
J3_37047.6

Problematic loops

No problematic loops


Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.0586 s