Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5UYL_0011/01/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_5UYL_0021/01/87:95No text annotation
homologous
HL_5J7L_135
NA
HL_5UYL_0031/01/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.6
HL_5UYL_0051/01/158:168No text annotation
homologous
HL_5J7L_138
NA
HL_5UYL_0061/01/194:201No text annotation
geometric
HL_5J7L_139
NA
HL_5UYL_0071/01/225:230No text annotation
homologous
HL_5J7L_140
NA
HL_5UYL_0081/01/246:252No text annotation
homologous
HL_5J7L_141
NA
HL_5UYL_0091/01/305:312T-loop with 2 stacked bulged bases
homologous
HL_5J7L_142
NA
HL_5UYL_0101/01/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_5UYL_0111/01/382:392No text annotation
homologous
HL_5J7L_145
NA
HL_5UYL_0121/01/410:417Pseudoknot geometry
homologous
HL_5J7L_146
NA
HL_5UYL_0131/01/462:467GNRA
homologous
HL_7A0S_015
HL_34789.1
HL_5UYL_0141/01/487:493GNRA
homologous
HL_5J7L_148
NA
HL_5UYL_0161/01/566:575T-loop with 2 stacked bulged bases
geometric
HL_5J7L_150
NA
HL_5UYL_0171/01/611:617No text annotation
homologous
HL_5J7L_151
NA
HL_5UYL_0181/01/629:634GNRA
homologous
HL_5J7L_152
NA
HL_5UYL_1121/01/641:647No text annotation
homologous
HL_5J7L_153
NA
HL_5UYL_0201/01/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
NA
HL_5UYL_0211/01/744:753No text annotation
homologous
HL_4WF9_023
HL_50204.1
HL_5UYL_0221/01/779:785No text annotation
geometric
HL_5U3G_001
NA
HL_5UYL_0231/01/826:831No text annotation
homologous
HL_7RQB_025
NA
HL_5UYL_0251/01/955:962GNRA
homologous
HL_7RQB_027
NA
HL_5UYL_0261/01/978:985No text annotation
homologous
HL_7A0S_027
HL_47171.1
HL_5UYL_0301/01/1222:1227GNRA
homologous
HL_5J7L_164
NA
HL_5UYL_0311/01/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
NA
HL_5UYL_0321/01/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_5UYL_0331/01/1363:1368GNRA
homologous
HL_5J7L_167
NA
HL_5UYL_0341/01/1389:1398No text annotation
homologous
HL_7RQB_036
NA
HL_5UYL_0351/01/1450:1461No text annotation
geometric
HL_8VTW_008
NA
HL_5UYL_0361/01/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_5UYL_0381/01/1565:1568No text annotation
homologous
HL_7RQB_039
NA
HL_5UYL_0391/01/1612:1619No text annotation
homologous
HL_4WF9_038
HL_28592.1
HL_5UYL_0401/01/1630:1636GNRA
homologous
HL_5J7L_174
NA
HL_5UYL_0411/01/1691:1696No text annotation
homologous
HL_7RQB_042
NA
HL_5UYL_0431/01/1752:1756No text annotation
homologous
HL_5J7L_177
NA
HL_5UYL_0441/01/1777:1787No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_5UYL_0451/01/1806:1811GNRA related
homologous
HL_5J7L_179
NA
HL_5UYL_0471/01/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_5UYL_0481/01/1949:1957No text annotation
homologous
HL_7RQB_049
NA
HL_5UYL_0491/01/2027:2036No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_5UYL_0511/01/2209:2215No text annotation
homologous
HL_5J7L_185
NA
HL_5UYL_0521/01/2248:2256No text annotation
homologous
HL_7RQB_053
NA
HL_5UYL_0531/01/2264:2276No text annotation
homologous
HL_7RQB_054
NA
HL_5UYL_0541/01/2303:2313No text annotation
homologous
HL_5J7L_188
NA
HL_5UYL_0551/01/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
NA
HL_5UYL_0561/01/2356:2361GNRA
homologous
HL_5J7L_190
NA
HL_5UYL_0571/01/2374:2379GNRA
homologous
HL_4WF9_054
HL_34789.1
HL_5UYL_0581/01/2404:2413No text annotation
homologous
HL_5J7L_192
NA
HL_5UYL_0591/01/2471:2479No text annotation
homologous
HL_4WF9_056
HL_52011.1
HL_5UYL_0601/01/2528:2535GNRA variation
homologous
HL_5J7L_194
NA
HL_5UYL_0611/01/2551:2557No text annotation
homologous
HL_5J7L_195
NA
HL_5UYL_0621/01/2594:2599GNRA
homologous
HL_7RQB_063
NA
HL_5UYL_0631/01/2658:2663GNRA
geometric
HL_7A0S_063
HL_34789.1
HL_5UYL_0641/01/2701:2706Ribsomal LSU H95
homologous
HL_5J7L_198
NA
HL_5UYL_0651/01/2745:2759No text annotation
homologous
HL_5J7L_199
NA
HL_5UYL_0671/01/2819:2827No text annotation
homologous
HL_5J7L_201
NA
HL_5UYL_0681/01/2856:2861GNRA
homologous
HL_7A0S_068
HL_34789.1
HL_5UYL_0691/02/34:48No text annotation
homologous
HL_4V9F_074
HL_97756.3
HL_5UYL_0701/02/86:90Mini UNCG
homologous
HL_5J7L_204
NA
HL_5UYL_0711/A/12:22No text annotation
homologous
HL_5J7L_001
NA
HL_5UYL_0761/A/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_5UYL_0771/A/296:301GNRA
homologous
HL_5J7L_007
NA
HL_5UYL_0781/A/320:333No text annotation
homologous
HL_5J7L_008
NA
HL_5UYL_0791/A/342:347UNCG
homologous
HL_6CZR_080
NA
HL_5UYL_0801/A/379:384GNRA
homologous
HL_5J7L_010
NA
HL_5UYL_0821/A/462:470GNRA wlth extra near cWW
homologous
HL_5J7L_012
NA
HL_5UYL_0831/A/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.6
HL_5UYL_0841/A/617:623GNRA-like with tWH
homologous
HL_5J7L_014
NA
HL_5UYL_0851/A/689:698No text annotation
homologous
HL_4LFB_015
HL_38491.1
HL_5UYL_0861/A/726:731GNRA
homologous
HL_5J7L_016
NA
HL_5UYL_0871/A/786:796No text annotation
homologous
HL_4LFB_017
HL_38491.1
HL_5UYL_0891/A/862:867GNRA
homologous
HL_5J7L_019
NA
HL_5UYL_0901/A/897:902GNRA
homologous
HL_4LFB_020
HL_34789.1
HL_5UYL_0911/A/963:972No text annotation
homologous
HL_5J7L_021
NA
HL_5UYL_0921/A/1012:1017GNRA
homologous
HL_4LFB_022
HL_34789.1
HL_5UYL_0941/A/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_5UYL_0951/A/1089:1096T-loop related
homologous
HL_5J7L_024
NA
HL_5UYL_0971/A/1165:1171GNRA
homologous
HL_4LFB_027
HL_34789.1
HL_5UYL_0981/A/1265:1270GNRA
homologous
HL_4LFB_028
HL_34789.1
HL_5UYL_0991/A/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_5J7L_028
NA
HL_5UYL_1001/A/1356:1366No text annotation
homologous
HL_4LFB_030
HL_86432.1
HL_5UYL_1011/A/1449:1454UNCG
homologous
HL_5J7L_030
NA
HL_5UYL_1021/A/1515:1520GNRA
homologous
HL_6CZR_103
NA
HL_5UYL_1031/W/13:22tRNA D-loop
homologous
HL_4TUE_033
NA
HL_5UYL_1041/W/31:39tRNA anticodon loop
homologous
HL_4TUE_034
NA
HL_5UYL_1051/W/53:61T-loop with 2 stacked bulged bases
homologous
HL_5AH5_008
HL_33597.1

Problematic loops

#loop idProblemSequence
HL_5UYL_004No text annotation
HL_5UYL_015Mini UNCG with extended bulge
HL_5UYL_019GNRA wlth extra near cWW
HL_5UYL_024No text annotation
HL_5UYL_027No text annotation
HL_5UYL_028GNRA wlth tandem sheared
HL_5UYL_029No text annotation
HL_5UYL_037UNCG
HL_5UYL_042No text annotation
HL_5UYL_046GNRA variation
HL_5UYL_050No text annotation
HL_5UYL_066UNCG variation
HL_5UYL_072No text annotation
HL_5UYL_113GNRA with extra near cWW
HL_5UYL_073GNRA
HL_5UYL_074GNRA
HL_5UYL_075No text annotation
HL_5UYL_081UNCG
HL_5UYL_088No text annotation
HL_5UYL_093No text annotation
HL_5UYL_096No text annotation
HL_5UYL_106tRNA D-loop
HL_5UYL_107tRNA anticodon loop
HL_5UYL_108T-loop with 2 stacked bulged bases
HL_5UYL_109No text annotation
HL_5UYL_110tRNA anticodon loop
HL_5UYL_111T-loop with 2 stacked bulged bases

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5UYL_0011/01/24:30,
1/01/510:516
Triple sheared with non-canonical cWW
homologous
IL_5J7L_245
NA
IL_5UYL_0021/01/36:37,
1/01/442:444
Single bulged A
homologous
IL_7RQB_002
NA
IL_5UYL_0031/01/43:44,
1/01/434:436
Minor groove platform
homologous
IL_5J7L_247
NA
IL_5UYL_0041/01/81:85,
1/01/97:105
Kink-turn
homologous
IL_7RQB_004
NA
IL_5UYL_0051/01/183:184,
1/01/212:214
Single stack bend
homologous
IL_5J7L_249
NA
IL_5UYL_0061/01/188:194,
1/01/201:208
8x7 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_006
NA
IL_5UYL_0071/01/239:245,
1/01/253:258
7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
NA
IL_5UYL_0081/01/269:271,
1/01/366:370
No text annotation
homologous
IL_5J7L_252
NA
IL_5UYL_0101/01/293:295,
1/01/343:347
No text annotation
homologous
IL_5J7L_254
NA
IL_5UYL_0111/01/481:484,
1/01/496:509
No text annotation
homologous
IL_5J7L_255
NA
IL_5UYL_0121/01/536:539,
1/01/554:557
Double sheared
homologous
IL_5J7L_256
NA
IL_5UYL_0131/01/564:566,
1/01/575:577
Isolated non-canonical cWW pair
homologous
IL_5J7L_257
NA
IL_5UYL_0141/01/606:610,
1/01/618:622
AAA cross-strand stack
homologous
IL_5J7L_258
NA
IL_5UYL_0151/01/672:674,
1/01/806:808
Isolated non-canonical cWW pair
homologous
IL_5J7L_259
NA
IL_5UYL_0161/01/674:678,
1/01/799:806
tHW-tHW cross-strand stack
geometric
IL_7RQB_018
NA
IL_5UYL_0171/01/697:698,
1/01/763:765
Single bulged A
homologous
IL_5J7L_261
NA
IL_5UYL_0181/01/702:703,
1/01/728:730
Single bulged G
geometric
IL_4V9F_026
IL_28408.1
IL_5UYL_0191/01/703:707,
1/01/724:728
Triple sheared
homologous
IL_7RQB_021
NA
IL_5UYL_0201/01/738:740,
1/01/757:758
Major groove platform
homologous
IL_4WF9_026
IL_48076.7
IL_5UYL_0211/01/775:777,
1/01/787:791
Multiple bulged bases
homologous
IL_7A0S_021
IL_89509.1
IL_5UYL_0221/01/844:847,
1/01/933:934
90 degree turn
homologous
IL_5J7L_267
NA
IL_5UYL_1751/01/844:848,
1/01/930:934
No text annotation
geometric
IL_5J7L_399
NA
IL_5UYL_0231/01/847:848,
1/01/930:933
Stack outside cWW
geometric
IL_5J7L_268
NA
IL_5UYL_0241/01/850:851,
1/01/926:928
Single stack bend
homologous
IL_5J7L_269
NA
IL_5UYL_0251/01/856:862,
1/01/915:921
7x7 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_5J7L_270
NA
IL_5UYL_0261/01/862:863,
1/01/913:915
Single bulged G
geometric
IL_5J7L_271
NA
IL_5UYL_0271/01/864:868,
1/01/909:912
C-loop with bulged stacked A's
homologous
IL_5J7L_272
NA
IL_5UYL_0281/01/870:872,
1/01/905:907
Isolated non-canonical cWW pair
homologous
IL_5J7L_273
NA
IL_5UYL_0291/01/875:879,
1/01/898:902
Double sheared with non-canonical cWW
homologous
IL_5J7L_274
NA
IL_5UYL_0311/01/994:996,
1/01/1159:1160
Single bulged C
homologous
IL_5J7L_276
NA
IL_5UYL_0321/01/998:1002,
1/01/1153:1157
UAA/GAN
homologous
IL_7A0S_033
IL_08938.1
IL_5UYL_0331/01/1004:1011,
1/01/1150:1151
SSU/LSU pseudoknot
homologous
IL_5J7L_278
NA
IL_5UYL_0341/01/1011:1013,
1/01/1149:1150
Single bulged U
geometric
IL_5J7L_279
NA
IL_5UYL_0351/01/1018:1024,
1/01/1140:1144
Kink-turn related
geometric
IL_5J7L_280
NA
IL_5UYL_0361/01/1024:1030,
1/01/1124:1140
No text annotation
geometric
IL_5J7L_281
NA
IL_5UYL_0371/01/1031:1034,
1/01/1121:1123
Isolated non-canonical cWW pair
homologous
IL_4WF9_041
IL_30229.1
IL_5UYL_0381/01/1038:1041,
1/01/1114:1117
Tandem non-canonical cWW pairs
homologous
IL_5J7L_283
NA
IL_5UYL_0391/01/1043:1051,
1/01/1108:1112
Kink-turn
homologous
IL_5J7L_284
NA
IL_5UYL_0411/01/1087:1090,
1/01/1101:1102
Major groove platform
geometric
IL_3NKB_002
NA
IL_5UYL_0421/01/1196:1198,
1/01/1247:1250
Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.4
IL_5UYL_0431/01/1202:1206,
1/01/1240:1243
No text annotation
homologous
IL_5J7L_287
NA
IL_5UYL_0441/01/1208:1215,
1/01/1234:1238
Kink-turn
homologous
IL_5J7L_288
NA
IL_5UYL_0451/01/1262:1269,
1/01/2011:2017
8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_5UYL_0461/01/1310:1313,
1/01/1603:1604
Major groove platform; stack outside cWW
homologous
IL_4WF9_049
IL_74641.1
IL_5UYL_0471/01/1319:1323,
1/01/1331:1333
C-loop
homologous
IL_5J7L_291
NA
IL_5UYL_0481/01/1351:1355,
1/01/1376:1380
UAA/GAN
homologous
IL_5J7L_292
NA
IL_5UYL_0491/01/1357:1361,
1/01/1370:1374
tSH-tHW-tHS
homologous
IL_5J7L_293
NA
IL_5UYL_0501/01/1415:1416,
1/01/1582:1587
No text annotation
homologous
IL_5J7L_294
NA
IL_5UYL_0511/01/1417:1421,
1/01/1577:1581
UAA/GAN
homologous
IL_5J7L_295
NA
IL_5UYL_0521/01/1432:1435,
1/01/1557:1561
Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
NA
IL_5UYL_0531/01/1437:1440,
1/01/1551:1555
tSH-tHW
homologous
IL_5J7L_297
NA
IL_5UYL_0541/01/1468:1471,
1/01/1520:1524
No text annotation
homologous
IL_5J7L_299
NA
IL_5UYL_1761/01/1474:1478,
1/01/1513:1517
tSH-tHW-tHS
homologous
IL_5J7L_300
NA
IL_5UYL_0561/01/1481:1482,
1/01/1507:1510
180 degree turn
homologous
IL_5J7L_301
NA
IL_5UYL_0571/01/1489:1491,
1/01/1499:1500
Single bulged A
homologous
IL_5J7L_302
NA
IL_5UYL_0581/01/1526:1529,
1/01/1542:1546
UAA/GAN variation
homologous
IL_5J7L_303
NA
IL_5UYL_0591/01/1651:1656,
1/01/2004:2006
No text annotation
homologous
IL_5J7L_304
NA
IL_5UYL_0601/01/1663:1665,
1/01/1995:1997
Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_5UYL_0611/01/1666:1669,
1/01/1993:1994
Major groove platform; stack outside cWW
homologous
IL_7RQB_066
NA
IL_5UYL_1781/01/1666:1674,
1/01/1990:1994
No text annotation
homologous
IL_5J7L_386
NA
IL_5UYL_0621/01/1669:1674,
1/01/1990:1993
Intercalated tWH
geometric
IL_5J7L_307
NA
IL_5UYL_0631/01/1686:1691,
1/01/1696:1702
tSH-tSH-tHH-tHS
geometric
IL_7RQB_068
NA
IL_5UYL_0641/01/1712:1718,
1/01/1742:1746
6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
NA
IL_5UYL_0651/01/1720:1724,
1/01/1736:1740
Triple sheared
homologous
IL_5J7L_310
NA
IL_5UYL_0661/01/1770:1771,
1/01/1980:1982
Single bulged A
homologous
IL_4WF9_068
IL_14190.1
IL_5UYL_0671/01/1798:1804,
1/01/1813:1821
Kink-turn related
homologous
IL_7RQB_070
NA
IL_5UYL_0681/01/1837:1840,
1/01/1902:1903
Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_5UYL_0691/01/1841:1842,
1/01/1898:1901
Major groove intercalation
homologous
IL_5J7L_315
NA
IL_5UYL_0701/01/1846:1849,
1/01/1893:1894
Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
NA
IL_5UYL_1791/01/1851:1860,
1/01/1882:1891
No text annotation
homologous
IL_5J7L_387
NA
IL_5UYL_0711/01/1864:1867,
1/01/1874:1878
UAA/GAN related
homologous
IL_5J7L_317
NA
IL_5UYL_0721/01/1933:1934,
1/01/1964:1967
Bulged stacked bases
geometric
IL_4WF9_076
IL_24886.1
IL_5UYL_0731/01/1934:1945,
1/01/1961:1964
No text annotation
homologous
IL_4WF9_077
IL_84014.1
IL_5UYL_0741/01/2050:2052,
1/01/2617:2618
Major groove platform
homologous
IL_5J7L_320
NA
IL_5UYL_0751/01/2054:2056,
1/01/2612:2615
No text annotation
homologous
IL_5J7L_321
NA
IL_5UYL_0761/01/2067:2069,
1/01/2442:2443
Single bulged U
homologous
IL_7RQB_080
NA
IL_5UYL_0771/01/2070:2071,
1/01/2438:2441
Minor groove platform
homologous
IL_7RQB_081
NA
IL_5UYL_0781/01/2081:2083,
1/01/2236:2239
Isolated tHS basepair with bulges
homologous
IL_5J7L_325
NA
IL_5UYL_0791/01/2085:2087,
1/01/2232:2234
No text annotation
homologous
IL_7RQB_083
NA
IL_5UYL_0831/01/2202:2204,
1/01/2220:2221
Single bulged U
homologous
IL_5J7L_331
NA
IL_5UYL_0841/01/2350:2353,
1/01/2364:2367
Double sheared
homologous
IL_5J7L_333
NA
IL_5UYL_0851/01/2401:2403,
1/01/2414:2415
No text annotation
IL_5UYL_0861/01/2453:2454,
1/01/2498:2500
Single stack bend
homologous
IL_4WF9_089
IL_15011.1
IL_5UYL_0871/01/2454:2455,
1/01/2496:2498
Major groove platform
geometric
IL_7RQB_092
NA
IL_5UYL_0881/01/2457:2459,
1/01/2493:2494
Major groove platform
homologous
IL_7A0S_085
IL_48076.7
IL_5UYL_0891/01/2459:2461,
1/01/2489:2493
Major groove minor groove platform with extra cWW
geometric
IL_5J7L_337
NA
IL_5UYL_0901/01/2466:2470,
1/01/2480:2484
Double sheared with non-canonical cWW
homologous
IL_5J7L_338
NA
IL_5UYL_0911/01/2507:2508,
1/01/2580:2582
Major groove platform
homologous
IL_4WF9_094
IL_46637.1
IL_5UYL_0921/01/2510:2512,
1/01/2574:2578
Isolated non-canonical cWW with bulges
geometric
IL_7RQB_097
NA
IL_5UYL_0931/01/2512:2513,
1/01/2571:2574
No text annotation
homologous
IL_5J7L_341
NA
IL_5UYL_0941/01/2522:2523,
1/01/2540:2543
Major groove platform with intercalation
homologous
IL_5J7L_342
NA
IL_5UYL_0951/01/2591:2592,
1/01/2601:2603
Single bulged A
homologous
IL_7RQB_101
NA
IL_5UYL_0961/01/2636:2640,
1/01/2774:2782
tSH-tHS-tHW
homologous
IL_5J7L_345
NA
IL_5UYL_0971/01/2652:2658,
1/01/2663:2668
Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_7RQB_103
NA
IL_5UYL_0981/01/2680:2684,
1/01/2725:2727
C-loop
homologous
IL_5J7L_347
NA
IL_5UYL_0991/01/2687:2691,
1/01/2718:2722
UAA/GAN related, with intercalation
homologous
IL_5J7L_348
NA
IL_5UYL_1001/01/2695:2696,
1/01/2711:2714
Multiple bulged bases
homologous
IL_4WF9_103
IL_44609.1
IL_5UYL_1011/01/2737:2742,
1/01/2762:2767
UAA/GAN with extra cWW
homologous
IL_5J7L_350
NA
IL_5UYL_1021/01/2806:2811,
1/01/2889:2892
No text annotation
geometric
IL_5J7L_351
NA
IL_5UYL_1031/01/2838:2839,
1/01/2878:2880
Major groove intercalation
homologous
IL_4WF9_106
IL_78536.1
IL_5UYL_1041/01/2843:2846,
1/01/2870:2874
Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
NA
IL_5UYL_1051/01/2847:2852,
1/01/2865:2869
tHS double platform
homologous
IL_5J7L_354
NA
IL_5UYL_1071/02/23:28,
1/02/56:60
No text annotation
homologous
IL_5J7L_356
NA
IL_5UYL_1091/02/71:79,
1/02/97:105
Bacterial 5S Loop E
homologous
IL_5J7L_359
NA
IL_5UYL_1101/A/30:32,
1/A/552:553
Single bulged G
homologous
IL_6CZR_113
NA
IL_5UYL_1111/A/44:45,
1/A/396:398
Single bulged A
homologous
IL_5J7L_002
NA
IL_5UYL_1121/A/47:52,
1/A/359:361
No text annotation
geometric
IL_5J7L_003
NA
IL_5UYL_1131/A/54:56,
1/A/356:357
Minor groove platform
homologous
IL_4LFB_004
IL_34520.1
IL_5UYL_1141/A/63:66,
1/A/103:104
Multiple bulged bases
homologous
IL_4LFB_005
IL_71421.1
IL_5UYL_1151/A/67:69,
1/A/99:102
Minor groove platform with extra cWW
homologous
IL_5J7L_006
NA
IL_5UYL_1161/A/70:73,
1/A/97:98
Minor groove platform
homologous
IL_5J7L_007
NA
IL_5UYL_1181/A/128:131,
1/A/231:233
Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_5UYL_1191/A/132:136,
1/A/227:230
Minor groove platform related
homologous
IL_5J7L_010
NA
IL_5UYL_1211/A/147:153,
1/A/168:175
tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_5UYL_1231/A/242:247,
1/A/277:284
Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_5UYL_1821/A/249:252,
1/A/274:275
No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_5UYL_1251/A/292:293,
1/A/304:308
C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_5UYL_1261/A/367:369,
1/A/392:393
Single bulged U
homologous
IL_5J7L_017
NA
IL_5UYL_1271/A/371:375,
1/A/389:390
C-loop
homologous
IL_5J7L_018
NA
IL_5UYL_1281/A/375:376,
1/A/387:389
Single bulged G
geometric
IL_5J7L_019
NA
IL_5UYL_1301/A/440:442,
1/A/492:497
No text annotation
homologous
IL_5J7L_021
NA
IL_5UYL_1311/A/446:450,
1/A/483:488
tSH-tHW-tWW
geometric
IL_5J7L_022
NA
IL_5UYL_1321/A/450:455,
1/A/477:483
No text annotation
homologous
IL_5J7L_023
NA
IL_5UYL_1331/A/504:511,
1/A/540:541
SSU/LSU pseudoknot
homologous
IL_5J7L_024
NA
IL_5UYL_1341/A/515:521,
1/A/528:536
Kink-turn related
geometric
IL_4V88_415
NA
IL_5UYL_1351/A/569:575,
1/A/880:881
No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_5UYL_1361/A/580:584,
1/A/757:761
tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_5UYL_1371/A/594:596,
1/A/644:645
Major groove platform
homologous
IL_5J7L_028
NA
IL_5UYL_1381/A/597:598,
1/A/640:643
Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
NA
IL_5UYL_1391/A/605:612,
1/A/628:633
No text annotation
homologous
IL_5J7L_030
NA
IL_5UYL_1401/A/654:655,
1/A/751:754
Major groove platform; stack outside cWW
geometric
IL_1G1X_004
NA
IL_5UYL_1411/A/659:660,
1/A/745:747
Single stack bend
homologous
IL_5J7L_032
NA
IL_5UYL_1421/A/662:666,
1/A/740:743
Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_5UYL_1431/A/673:678,
1/A/712:717
No text annotation
geometric
IL_4LFB_030
NA
IL_5UYL_1441/A/684:688,
1/A/699:706
Kink-turn
homologous
IL_5J7L_035
NA
IL_5UYL_1451/A/774:778,
1/A/804:805
Left turn
homologous
IL_5J7L_036
NA
IL_5UYL_1461/A/779:783,
1/A/799:803
tSH-tHW-tHS
homologous
IL_5J7L_037
NA
IL_5UYL_1471/A/887:894,
1/A/905:910
8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_5UYL_1481/A/922:923,
1/A/1393:1395
Single bulged A
homologous
IL_4LFB_035
IL_14190.1
IL_5UYL_1491/A/925:927,
1/A/1390:1391
Single bulged G
homologous
IL_5J7L_040
NA
IL_5UYL_1501/A/933:935,
1/A/1380:1384
Minor groove platform
homologous
IL_5J7L_041
NA
IL_5UYL_1511/A/953:954,
1/A/1226:1228
No text annotation
homologous
IL_6CZR_150
NA
IL_5UYL_1521/A/993:997,
1/A/1044:1045
Minor groove platform
homologous
IL_5J7L_043
NA
IL_5UYL_1531/A/998:999,
1/A/1041:1043
Single stack bend
homologous
IL_5J7L_044
NA
IL_5UYL_1541/A/1048:1050,
1/A/1208:1209
Single bulged U
homologous
IL_5J7L_046
NA
IL_5UYL_1831/A/1052:1056,
1/A/1204:1206
No text annotation
homologous
IL_6CZR_154
NA
IL_5UYL_1561/A/1057:1058,
1/A/1199:1203
Minor groove platform
homologous
IL_5J7L_048
NA
IL_5UYL_1571/A/1060:1061,
1/A/1195:1197
Single bulged U
homologous
IL_6CZR_156
NA
IL_5UYL_1581/A/1061:1063,
1/A/1193:1195
Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_5UYL_1591/A/1124:1128,
1/A/1144:1149
No text annotation
homologous
IL_5J7L_051
NA
IL_5UYL_1601/A/1129:1132,
1/A/1142:1143
Minor groove platform
homologous
IL_5J7L_052
NA
IL_5UYL_1611/A/1158:1161,
1/A/1175:1181
No text annotation
geometric
IL_5J7L_053
NA
IL_5UYL_1621/A/1247:1253,
1/A/1284:1290
No text annotation
homologous
IL_5J7L_054
NA
IL_5UYL_1631/A/1255:1258,
1/A/1277:1282
180 degree turn
homologous
IL_5J7L_055
NA
IL_5UYL_1641/A/1259:1263,
1/A/1272:1276
Double sheared with non-canonical cWW
homologous
IL_5J7L_056
NA
IL_5UYL_1651/A/1303:1308,
1/A/1329:1334
No text annotation
geometric
IL_4LFB_055
IL_57885.1
IL_5UYL_1661/A/1399:1401,
1/A/1501:1504
No text annotation
geometric
IL_4V88_463
NA
IL_5UYL_1671/A/1401:1404,
1/A/1497:1501
No text annotation
geometric
IL_4V88_464
NA
IL_5UYL_1681/A/1405:1407,
1/A/1494:1496
Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_5UYL_1691/A/1407:1409,
1/A/1491:1494
No text annotation
geometric
IL_8UO6_002
NA
IL_5UYL_1701/A/1412:1414,
1/A/1486:1488
Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_5UYL_1711/A/1416:1419,
1/A/1481:1484
Double sheared
homologous
IL_5J7L_062
NA
IL_5UYL_1721/A/1430:1435,
1/A/1466:1470
Triple sheared related
homologous
IL_5J7L_063
NA
IL_5UYL_1741/A/1445:1448,
1/A/1455:1457
No text annotation
homologous
IL_5J7L_065
NA

Problematic loops

#loop idProblemSequence
IL_5UYL_185No text annotation
IL_5UYL_009No text annotation
IL_5UYL_030No text annotation
IL_5UYL_040No text annotation
IL_5UYL_0555x5 Sarcin-Ricin with intercalated A; G-bulge
IL_5UYL_177Isolated non-canonical cWW pair
IL_5UYL_080Isolated non-canonical cWW pair
IL_5UYL_081Tandem non-canonical cWW pairs
IL_5UYL_186Isolated non-canonical cWW pair
IL_5UYL_082No text annotation
IL_5UYL_180No text annotation
IL_5UYL_187No text annotation
IL_5UYL_181Tandem non-canonical cWW pairs
IL_5UYL_106Major groove intercalation
IL_5UYL_108Major groove minor groove platform; mini C-loop
IL_5UYL_188No text annotation
IL_5UYL_117Tandem non-canonical cWW pairs
IL_5UYL_120Isolated cWH basepair
IL_5UYL_122Minor groove platform
IL_5UYL_124No text annotation
IL_5UYL_129No text annotation
IL_5UYL_155Tandem non-canonical cWW pairs
IL_5UYL_173Major groove platform with extra cWW
IL_5UYL_184Single bulged A

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5UYL_0011/01/30:31,
1/01/474:481,
1/01/509:510
No text annotation
homologous
J3_7RQB_001
NA
J3_5UYL_0281/01/30:31,
1/01/474:484,
1/01/496:510
No text annotation
homologous
J3_5J7L_066
NA
J3_5UYL_0291/01/32:35,
1/01/445:461,
1/01/468:473
No text annotation
homologous
J3_5J7L_067
NA
J3_5UYL_0021/01/56:57,
1/01/70:76,
1/01/110:114
No text annotation
homologous
J3_5J7L_037
NA
J3_5UYL_0301/01/297:301,
1/01/316:325,
1/01/337:341
No text annotation
homologous
J3_5J7L_068
NA
J3_5UYL_0031/01/683:689,
1/01/773:775,
1/01/791:794
No text annotation
homologous
J3_5J7L_038
NA
J3_5UYL_0041/01/698:700,
1/01/732:736,
1/01/760:763
No text annotation
homologous
J3_7RQB_005
NA
J3_5UYL_0061/01/1298:1303,
1/01/1625:1627,
1/01/1639:1642
No text annotation
homologous
J3_5J7L_041
NA
J3_5UYL_0071/01/1306:1309,
1/01/1605:1611,
1/01/1620:1622
No text annotation
homologous
J3_7A0S_007
J3_47341.1
J3_5UYL_0081/01/1344:1349,
1/01/1382:1385,
1/01/1402:1403
No text annotation
homologous
J3_5J7L_043
NA
J3_5UYL_0311/01/1424:1429,
1/01/1564:1565,
1/01/1568:1574
No text annotation
homologous
J3_5J7L_069
NA
J3_5UYL_0091/01/2091:2093,
1/01/2196:2200,
1/01/2223:2228
Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_5UYL_0321/01/2282:2284,
1/01/2384:2395,
1/01/2421:2427
No text annotation
homologous
J3_5J7L_070
NA
J3_5UYL_0101/01/2295:2299,
1/01/2317:2323,
1/01/2332:2337
No text annotation
J3_5UYL_0111/01/2517:2520,
1/01/2545:2547,
1/01/2561:2567
No text annotation
homologous
J3_5J7L_046
NA
J3_5UYL_0121/01/2789:2791,
1/01/2805:2806,
1/01/2892:2894
No text annotation
homologous
J3_5J7L_047
NA
J3_5UYL_0131/01/2812:2815,
1/01/2831:2836,
1/01/2882:2888
No text annotation
homologous
J3_5J7L_048
NA
J3_5UYL_0141/02/10:16,
1/02/68:70,
1/02/106:110
No text annotation
homologous
J3_5J7L_049
NA
J3_5UYL_0151/A/46:47,
1/A/361:367,
1/A/393:395
No text annotation
homologous
J3_5J7L_001
NA
J3_5UYL_0341/A/46:52,
1/A/359:367,
1/A/393:395
No text annotation
homologous
J3_5J7L_050
NA
J3_5UYL_0161/A/586:588,
1/A/651:654,
1/A/754:755
No text annotation
homologous
J3_5J7L_002
NA
J3_5UYL_0351/A/586:588,
1/A/651:655,
1/A/751:755
No text annotation
homologous
J3_5J7L_051
NA
J3_5UYL_0171/A/672:673,
1/A/717:725,
1/A/732:734
No text annotation
homologous
J3_5J7L_003
NA
J3_5UYL_0181/A/826:829,
1/A/857:861,
1/A/868:874
No text annotation
homologous
J3_5J7L_004
NA
J3_5UYL_0191/A/936:939,
1/A/1344:1350,
1/A/1372:1379
No text annotation
homologous
J3_4LFB_002
J3_85722.1
J3_5UYL_0201/A/943:946,
1/A/1235:1237,
1/A/1337:1340
No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_5UYL_0211/A/955:962,
1/A/973:984,
1/A/1221:1225
No text annotation
homologous
J3_5J7L_006
NA
J3_5UYL_0221/A/990:993,
1/A/1045:1047,
1/A/1210:1215
No text annotation
homologous
J3_4LFB_005
J3_84394.1
J3_5UYL_0361/A/990:997,
1/A/1044:1047,
1/A/1210:1215
No text annotation
homologous
J3_4LFB_016
J3_28881.1
J3_5UYL_0241/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193
No text annotation
homologous
J3_5J7L_008
NA
J3_5UYL_0251/A/1073:1074,
1/A/1083:1087,
1/A/1098:1102
No text annotation
homologous
J3_6CZR_024
NA
J3_5UYL_0261/A/1116:1118,
1/A/1155:1158,
1/A/1181:1184
No text annotation
homologous
J3_5J7L_010
NA
J3_5UYL_0371/A/1116:1118,
1/A/1155:1161,
1/A/1175:1184
No text annotation
homologous
J3_5J7L_054
NA
J3_5UYL_0271/A/1237:1241,
1/A/1296:1303,
1/A/1334:1337
No text annotation
homologous
J3_4LFB_009
J3_03192.1
J4_5UYL_0011/01/268:269,
1/01/370:375,
1/01/399:406,
1/01/421:424
No text annotation
homologous
J4_5J7L_018
NA
J4_5UYL_0021/01/601:604,
1/01/624:628,
1/01/635:638,
1/01/650:656
No text annotation
homologous
J4_5J7L_020
NA
J4_5UYL_0031/01/1270:1276,
1/01/1294:1295,
1/01/1645:1648,
1/01/2009:2010
No text annotation
homologous
J4_5J7L_021
NA
J4_5UYL_0041/01/1310:1314,
1/01/1338:1343,
1/01/1404:1405,
1/01/1597:1604
No text annotation
homologous
J4_5J7L_022
NA
J4_5UYL_0051/01/1313:1314,
1/01/1338:1343,
1/01/1404:1405,
1/01/1597:1603
No text annotation
homologous
J4_5J7L_023
NA
J4_5UYL_0061/01/1444:1445,
1/01/1466:1467,
1/01/1525:1526,
1/01/1546:1547
No text annotation
homologous
J4_5J7L_024
NA
J4_5UYL_0071/01/1772:1776,
1/01/1788:1792,
1/01/1827:1830,
1/01/1975:1979
No text annotation
homologous
J4_4WF9_007
J4_61477.6
J4_5UYL_0081/01/1833:1835,
1/01/1905:1906,
1/01/1924:1933,
1/01/1967:1972
No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_5UYL_0091/01/2285:2289,
1/01/2343:2347,
1/01/2370:2372,
1/01/2381:2383
No text annotation
homologous
J4_9DFE_009
J4_98139.1
J4_5UYL_0101/01/2643:2646,
1/01/2674:2676,
1/01/2731:2735,
1/01/2769:2771
No text annotation
homologous
J4_5J7L_028
NA
J4_5UYL_0111/A/115:122,
1/A/239:240,
1/A/286:289,
1/A/311:312
No text annotation
homologous
J4_5J7L_001
NA
J4_5UYL_0121/A/142:144,
1/A/178:184,
1/A/193:198,
1/A/219:221
No text annotation
homologous
J4_5J7L_002
NA
J4_5UYL_0131/A/575:577,
1/A/764:769,
1/A/810:821,
1/A/879:880
No text annotation
homologous
J4_5J7L_003
NA
J4_5UYL_0141/W/7:10,
1/W/25:27,
1/W/43:49,
1/W/65:66
tRNA junction
homologous
J4_4WT8_034
NA
J5_5UYL_0011/01/47:54,
1/01/116:121,
1/01/130:131,
1/01/148:150,
1/01/176:178
No text annotation
homologous
J5_5J7L_013
NA
J5_5UYL_0021/01/531:533,
1/01/560:564,
1/01/577:579,
1/01/1261:1262,
1/01/2017:2018
No text annotation
homologous
J5_5J7L_014
NA
J5_5UYL_0031/01/584:589,
1/01/668:671,
1/01/809:812,
1/01/1195:1196,
1/01/1250:1256
No text annotation
homologous
J5_5J7L_015
NA
J5_5UYL_0041/01/1674:1682,
1/01/1706:1707,
1/01/1751:1752,
1/01/1756:1764,
1/01/1988:1990
No text annotation
homologous
J5_5J7L_016
NA
J5_5UYL_0051/01/2057:2064,
1/01/2446:2453,
1/01/2500:2507,
1/01/2582:2588,
1/01/2606:2611
No text annotation
J5_5UYL_0061/01/2074:2077,
1/01/2243:2246,
1/01/2258:2259,
1/01/2281:2282,
1/01/2427:2435
No text annotation
homologous
J5_4WF9_007
J5_39529.2
J5_5UYL_0071/A/36:39,
1/A/403:406,
1/A/436:440,
1/A/497:500,
1/A/545:548
No text annotation
homologous
J5_5J7L_001
NA
J5_5UYL_0081/A/36:39,
1/A/403:406,
1/A/436:442,
1/A/492:500,
1/A/545:548
No text annotation
homologous
J5_5J7L_002
NA
J5_5UYL_0091/A/58:61,
1/A/106:113,
1/A/314:316,
1/A/337:339,
1/A/350:354
No text annotation
homologous
J5_4LFB_002
J5_58574.1
J6_5UYL_0011/01/45:46,
1/01/179:183,
1/01/214:224,
1/01/231:235,
1/01/262:266,
1/01/426:433
No text annotation
J6_5UYL_0021/01/2074:2077,
1/01/2243:2246,
1/01/2258:2259,
1/01/2281:2284,
1/01/2384:2395,
1/01/2421:2435
No text annotation
J7_5UYL_0011/01/8:15,
1/01/525:531,
1/01/2018:2023,
1/01/2040:2043,
1/01/2625:2630,
1/01/2788:2789,
1/01/2894:2895
No text annotation
J7_5UYL_0021/01/817:822,
1/01/835:838,
1/01/940:946,
1/01/971:976,
1/01/987:991,
1/01/1163:1164,
1/01/1185:1190
No text annotation

Problematic loops

#loop idProblemSequence
J3_5UYL_005No text annotation
J3_5UYL_033No text annotation
J3_5UYL_023No text annotation
J4_5UYL_015tRNA junction
J4_5UYL_016tRNA junction

Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.1607 s