Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_9YDD_0371/A/1862:1868No text annotation
homologous
HL_9PN5_041
HL_34789.7
HL_9YDD_0391/A/2110:2114No text annotation
homologous
HL_9H3G_048
HL_16651.3
HL_9YDD_0801/E/450:456No text annotation
homologous
HL_9PN5_088
HL_25795.2
HL_9YDD_1001/m/13:22tRNA D-loop
homologous
HL_1QF6_001
HL_20490.1

Problematic loops

#loop idProblemSequence
HL_9YDD_001No text annotation
HL_9YDD_002No text annotation
HL_9YDD_003No text annotation
HL_9YDD_004No text annotation
HL_9YDD_005No text annotation
HL_9YDD_006No text annotation
HL_9YDD_007No text annotation
HL_9YDD_008No text annotation
HL_9YDD_009No text annotation
HL_9YDD_010No text annotation
HL_9YDD_011No text annotation
HL_9YDD_012No text annotation
HL_9YDD_013No text annotation
HL_9YDD_014No text annotation
HL_9YDD_015No text annotation
HL_9YDD_016No text annotation
HL_9YDD_017No text annotation
HL_9YDD_018No text annotation
HL_9YDD_019No text annotation
HL_9YDD_020No text annotation
HL_9YDD_021No text annotation
HL_9YDD_022No text annotation
HL_9YDD_023No text annotation
HL_9YDD_024No text annotation
HL_9YDD_025No text annotation
HL_9YDD_026No text annotation
HL_9YDD_027No text annotation
HL_9YDD_028No text annotation
HL_9YDD_029No text annotation
HL_9YDD_030No text annotation
HL_9YDD_031No text annotation
HL_9YDD_032No text annotation
HL_9YDD_033No text annotation
HL_9YDD_034No text annotation
HL_9YDD_035No text annotation
HL_9YDD_036No text annotation
HL_9YDD_038No text annotation
HL_9YDD_040No text annotation
HL_9YDD_041No text annotation
HL_9YDD_042No text annotation
HL_9YDD_043No text annotation
HL_9YDD_044No text annotation
HL_9YDD_045No text annotation
HL_9YDD_046No text annotation
HL_9YDD_047LSU P loop
HL_9YDD_048No text annotation
HL_9YDD_049No text annotation
HL_9YDD_050No text annotation
HL_9YDD_051No text annotation
HL_9YDD_052No text annotation
HL_9YDD_053No text annotation
HL_9YDD_054No text annotation
HL_9YDD_055No text annotation
HL_9YDD_056No text annotation
HL_9YDD_057No text annotation
HL_9YDD_058No text annotation
HL_9YDD_059No text annotation
HL_9YDD_060No text annotation
HL_9YDD_061Mini UNCG
HL_9YDD_062No text annotation
HL_9YDD_063No text annotation
HL_9YDD_064No text annotation
HL_9YDD_065No text annotation
HL_9YDD_066No text annotation
HL_9YDD_067No text annotation
HL_9YDD_068No text annotation
HL_9YDD_069No text annotation
HL_9YDD_070No text annotation
HL_9YDD_071No text annotation
HL_9YDD_072No text annotation
HL_9YDD_073No text annotation
HL_9YDD_074No text annotation
HL_9YDD_075No text annotation
HL_9YDD_076No text annotation
HL_9YDD_077No text annotation
HL_9YDD_078No text annotation
HL_9YDD_079No text annotation
HL_9YDD_081No text annotation
HL_9YDD_082No text annotation
HL_9YDD_083No text annotation
HL_9YDD_084No text annotation
HL_9YDD_085No text annotation
HL_9YDD_086No text annotation
HL_9YDD_087No text annotation
HL_9YDD_088No text annotation
HL_9YDD_089No text annotation
HL_9YDD_090No text annotation
HL_9YDD_091No text annotation
HL_9YDD_092No text annotation
HL_9YDD_093No text annotation
HL_9YDD_094No text annotation
HL_9YDD_095No text annotation
HL_9YDD_096No text annotation
HL_9YDD_097No text annotation
HL_9YDD_098No text annotation
HL_9YDD_099No text annotation
HL_9YDD_101No text annotation
HL_9YDD_102T-loop with 2 stacked bulged bases
HL_9YDD_103No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_9YDD_0121/A/376:379,
1/A/390:403
No text annotation
geometric
IL_8OI5_015
IL_44923.4
IL_9YDD_0641/A/1669:1670,
1/A/1778:1780
No text annotation
homologous
IL_9SUM_064
IL_05642.6
IL_9YDD_0661/A/1694:1698,
1/A/1747:1752
No text annotation
homologous
IL_9AXU_067
IL_25943.3
IL_9YDD_0671/A/1702:1707,
1/A/1737:1743
No text annotation
homologous
IL_9PN5_070
IL_70240.1
IL_9YDD_0681/A/1711:1717,
1/A/1727:1733
No text annotation
homologous
IL_9PN5_071
IL_93476.4
IL_9YDD_0711/A/1898:1901,
1/A/2336:2337
Major groove platform; stack outside cWW
geometric
IL_8GLP_304
IL_74641.5
IL_9YDD_0721/A/1898:1906,
1/A/2333:2337
No text annotation
geometric
IL_8GLP_305
IL_80252.4
IL_9YDD_0731/A/1901:1906,
1/A/2333:2336
No text annotation
homologous
IL_8GLP_107
IL_28217.4
IL_9YDD_0751/A/1940:1942,
1/A/2106:2108
Isolated non-canonical cWW pair
homologous
IL_8GLP_109
IL_01003.7
IL_9YDD_0881/A/2412:2413,
1/A/2807:2810
No text annotation
homologous
IL_9SUM_087
IL_37129.1
IL_9YDD_1021/A/2889:2891,
1/A/2912:2914
Isolated non-canonical cWW pair
geometric
IL_8GLP_149
IL_01003.7
IL_9YDD_1031/A/2889:2892,
1/A/2909:2914
No text annotation
IL_9YDD_1041/A/2891:2892,
1/A/2909:2912
No text annotation
homologous
IL_9PN5_107
IL_94991.4
IL_9YDD_1091/A/3018:3025,
1/A/3030:3036
No text annotation
homologous
IL_9SUM_110
IL_34443.2
IL_9YDD_1101/A/3047:3051,
1/A/3091:3094
No text annotation
homologous
IL_9PN5_113
IL_06671.4
IL_9YDD_1121/A/3063:3064,
1/A/3077:3080
No text annotation
homologous
IL_9SUM_113
IL_44609.5
IL_9YDD_1131/A/3103:3107,
1/A/3127:3131
UAA/GAN
homologous
IL_9PN5_116
IL_08938.4
IL_9YDD_1251/A/3328:3330,
1/A/3373:3378
No text annotation
homologous
IL_9PN5_128
IL_00086.4
IL_9YDD_1271/A/3340:3342,
1/A/3363:3364
Single bulged U
homologous
IL_9PN5_130
IL_97561.9
IL_9YDD_1281/A/3342:3345,
1/A/3360:3363
No text annotation
homologous
IL_9SUM_126
IL_58355.5
IL_9YDD_1381/E/24:26,
1/E/600:601
No text annotation
homologous
IL_9SUM_137
IL_05642.6
IL_9YDD_1411/E/42:48,
1/E/431:433
No text annotation
geometric
IL_8GLP_191
IL_88082.5
IL_9YDD_1551/E/311:316,
1/E/348:355
Kink-turn with non-sequential stacking
homologous
IL_9PN5_159
IL_46174.7
IL_9YDD_1591/E/411:413,
1/E/420:422
Isolated non-canonical cWW pair
homologous
IL_9PN5_163
IL_19025.1

Problematic loops

#loop idProblemSequence
IL_9YDD_001Single bulged C
IL_9YDD_002Single bulged U
IL_9YDD_003Single stack bend
IL_9YDD_004No text annotation
IL_9YDD_0058x7 Sarcin-Ricin; G-bulge
IL_9YDD_006No text annotation
IL_9YDD_007Isolated non-canonical cWW pair
IL_9YDD_008Single stack bend
IL_9YDD_009Major groove platform
IL_9YDD_010Single bulged U
IL_9YDD_011Single bulged A
IL_9YDD_013No text annotation
IL_9YDD_014No text annotation
IL_9YDD_015Single bulged A
IL_9YDD_016No text annotation
IL_9YDD_017No text annotation
IL_9YDD_018Isolated non-canonical cWW pair
IL_9YDD_019No text annotation
IL_9YDD_020UAA/GAN variation
IL_9YDD_021Single bulged A
IL_9YDD_022Single bulged U
IL_9YDD_023No text annotation
IL_9YDD_024No text annotation
IL_9YDD_025No text annotation
IL_9YDD_026Single bulged G
IL_9YDD_027No text annotation
IL_9YDD_028No text annotation
IL_9YDD_029Single bulged U
IL_9YDD_030No text annotation
IL_9YDD_031No text annotation
IL_9YDD_032No text annotation
IL_9YDD_033No text annotation
IL_9YDD_034Single bulged G
IL_9YDD_0357x7 Sarcin-Ricin with intercalated A; G-bulge
IL_9YDD_036No text annotation
IL_9YDD_037No text annotation
IL_9YDD_038Tandem non-canonical cWW pairs; U in syn
IL_9YDD_039No text annotation
IL_9YDD_040No text annotation
IL_9YDD_041No text annotation
IL_9YDD_042No text annotation
IL_9YDD_043No text annotation
IL_9YDD_044UAA/GAN
IL_9YDD_045No text annotation
IL_9YDD_046Single bulged U
IL_9YDD_047No text annotation
IL_9YDD_048No text annotation
IL_9YDD_049Single bulged U
IL_9YDD_050Kink-turn
IL_9YDD_051No text annotation
IL_9YDD_052Single bulged A
IL_9YDD_053Kink-turn
IL_9YDD_054Single bulged A
IL_9YDD_055No text annotation
IL_9YDD_056No text annotation
IL_9YDD_057UAA/GAN
IL_9YDD_058No text annotation
IL_9YDD_059No text annotation
IL_9YDD_060Single bulged U
IL_9YDD_061Isolated non-canonical cWW pair
IL_9YDD_062No text annotation
IL_9YDD_063Isolated non-canonical cWW pair
IL_9YDD_065Single stack bend
IL_9YDD_069No text annotation
IL_9YDD_070No text annotation
IL_9YDD_074No text annotation
IL_9YDD_076No text annotation
IL_9YDD_077Single bulged A
IL_9YDD_078No text annotation
IL_9YDD_079No text annotation
IL_9YDD_080No text annotation
IL_9YDD_081No text annotation
IL_9YDD_082No text annotation
IL_9YDD_083No text annotation
IL_9YDD_084No text annotation
IL_9YDD_085No text annotation
IL_9YDD_086No text annotation
IL_9YDD_087Single bulged U
IL_9YDD_089No text annotation
IL_9YDD_090No text annotation
IL_9YDD_091AG tHS outside loop
IL_9YDD_092No text annotation
IL_9YDD_093No text annotation
IL_9YDD_094No text annotation
IL_9YDD_095No text annotation
IL_9YDD_096No text annotation
IL_9YDD_097No text annotation
IL_9YDD_098No text annotation
IL_9YDD_099No text annotation
IL_9YDD_100No text annotation
IL_9YDD_101No text annotation
IL_9YDD_105Isolated non-canonical cWW pair
IL_9YDD_106No text annotation
IL_9YDD_107Double sheared
IL_9YDD_108Isolated non-canonical cWW pair
IL_9YDD_111No text annotation
IL_9YDD_114Isolated non-canonical cWW pair
IL_9YDD_115Isolated non-canonical cWW pair
IL_9YDD_116Single bulged A
IL_9YDD_117No text annotation
IL_9YDD_118Single bulged U
IL_9YDD_119No text annotation
IL_9YDD_120Isolated non-canonical cWW pair
IL_9YDD_121Tandem non-canonical cWW pairs
IL_9YDD_122Tandem non-canonical cWW pairs
IL_9YDD_123Single bulged U
IL_9YDD_124Single bulged U
IL_9YDD_126No text annotation
IL_9YDD_129Single bulged A
IL_9YDD_130No text annotation
IL_9YDD_131No text annotation
IL_9YDD_132Single stack bend
IL_9YDD_133No text annotation
IL_9YDD_1348x7 Sarcin-Ricin; G-bulge
IL_9YDD_135Isolated non-canonical cWW pair
IL_9YDD_136No text annotation
IL_9YDD_137Single bulged U
IL_9YDD_139Isolated non-canonical cWW pair
IL_9YDD_140No text annotation
IL_9YDD_142Minor groove platform
IL_9YDD_143No text annotation
IL_9YDD_144No text annotation
IL_9YDD_145Tandem non-canonical cWW pairs
IL_9YDD_146No text annotation
IL_9YDD_147No text annotation
IL_9YDD_148No text annotation
IL_9YDD_149Isolated cWH basepair
IL_9YDD_150No text annotation
IL_9YDD_151No text annotation
IL_9YDD_152Single bulged A
IL_9YDD_153No text annotation
IL_9YDD_154Single bulged U
IL_9YDD_156No text annotation
IL_9YDD_157No text annotation
IL_9YDD_158Isolated cWH basepair
IL_9YDD_160Single bulged U
IL_9YDD_161No text annotation
IL_9YDD_162No text annotation
IL_9YDD_163No text annotation
IL_9YDD_164Minor groove platform
IL_9YDD_165No text annotation
IL_9YDD_166No text annotation
IL_9YDD_167No text annotation
IL_9YDD_168Kink-turn related
IL_9YDD_169No text annotation
IL_9YDD_170Isolated non-canonical cWW pair
IL_9YDD_171No text annotation
IL_9YDD_172Isolated non-canonical cWW pair
IL_9YDD_173No text annotation
IL_9YDD_174No text annotation
IL_9YDD_175No text annotation
IL_9YDD_176No text annotation
IL_9YDD_177Major groove platform; stack outside cWW
IL_9YDD_178Isolated non-canonical cWW pair
IL_9YDD_179Tandem non-canonical cWW pairs
IL_9YDD_180Tandem non-canonical cWW pairs
IL_9YDD_181Tandem non-canonical cWW pairs
IL_9YDD_182No text annotation
IL_9YDD_183No text annotation
IL_9YDD_184No text annotation
IL_9YDD_185No text annotation
IL_9YDD_186No text annotation
IL_9YDD_187Single bulged U
IL_9YDD_1888x6 Sarcin-Ricin with inserted Y; G-bulge
IL_9YDD_189No text annotation
IL_9YDD_190Single bulged G
IL_9YDD_191No text annotation
IL_9YDD_192No text annotation
IL_9YDD_193No text annotation
IL_9YDD_194No text annotation
IL_9YDD_195No text annotation
IL_9YDD_196No text annotation
IL_9YDD_197No text annotation
IL_9YDD_198No text annotation
IL_9YDD_199Single bulged U
IL_9YDD_200No text annotation
IL_9YDD_201No text annotation
IL_9YDD_202No text annotation
IL_9YDD_203Single bulged A
IL_9YDD_204Isolated cWH basepair
IL_9YDD_205No text annotation
IL_9YDD_206No text annotation
IL_9YDD_207No text annotation
IL_9YDD_208Isolated non-canonical cWW pair
IL_9YDD_209No text annotation
IL_9YDD_210No text annotation
IL_9YDD_211No text annotation
IL_9YDD_212No text annotation
IL_9YDD_213No text annotation
IL_9YDD_214No text annotation
IL_9YDD_215Isolated non-canonical cWW pair
IL_9YDD_216No text annotation
IL_9YDD_217Isolated non-canonical cWW pair
IL_9YDD_218Double sheared
IL_9YDD_219Single bulged U
IL_9YDD_220No text annotation
IL_9YDD_221No text annotation
IL_9YDD_222Isolated non-canonical cWW pair
IL_9YDD_223Tandem non-canonical cWW pairs
IL_9YDD_224No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_9YDD_0061/A/369:379,
1/A/390:404,
1/C/19:20
No text annotation
homologous
J3_9SUM_005
J3_17917.4
J3_9YDD_0271/E/41:48,
1/E/431:439,
1/E/464:466
No text annotation
homologous
J3_9SUM_027
J3_63856.4
J3_9YDD_0301/E/760:763,
1/E/773:775,
1/E/785:790
No text annotation
homologous
J3_9PN5_032
J3_97642.5
J3_9YDD_0321/E/1037:1039,
1/E/1079:1083,
1/E/1090:1094
No text annotation
homologous
J3_9SUM_031
J3_41498.1
J3_9YDD_0361/E/1215:1220,
1/E/1263:1267,
1/E/1442:1448
No text annotation
homologous
J3_9PN5_038
J3_87797.4
J4_9YDD_0031/A/1451:1457,
1/A/1475:1476,
1/A/1877:1880,
1/A/2352:2353
No text annotation
homologous
J4_9PN5_003
J4_19484.2
J4_9YDD_0101/E/99:107,
1/E/307:309,
1/E/357:361,
1/E/383:384
No text annotation
homologous
J4_9PN5_010
J4_15241.5
J5_9YDD_0041/A/1906:1914,
1/A/1938:1939,
1/A/2109:2110,
1/A/2114:2122,
1/A/2331:2333
No text annotation
homologous
J5_9PN5_004
J5_99177.4
J5_9YDD_0071/E/31:35,
1/E/473:479,
1/E/509:514,
1/E/543:546,
1/E/592:595
No text annotation
homologous
J5_9H3G_007
J5_04786.3

Problematic loops

#loop idProblemSequence
J3_9YDD_001No text annotation
J3_9YDD_002No text annotation
J3_9YDD_003No text annotation
J3_9YDD_004No text annotation
J3_9YDD_005No text annotation
J3_9YDD_007No text annotation
J3_9YDD_008No text annotation
J3_9YDD_009No text annotation
J3_9YDD_010No text annotation
J3_9YDD_011No text annotation
J3_9YDD_012No text annotation
J3_9YDD_013No text annotation
J3_9YDD_014No text annotation
J3_9YDD_015No text annotation
J3_9YDD_016No text annotation
J3_9YDD_017No text annotation
J3_9YDD_018No text annotation
J3_9YDD_019No text annotation
J3_9YDD_020No text annotation
J3_9YDD_021No text annotation
J3_9YDD_022No text annotation
J3_9YDD_023No text annotation
J3_9YDD_024No text annotation
J3_9YDD_025No text annotation
J3_9YDD_026No text annotation
J3_9YDD_028No text annotation
J3_9YDD_029No text annotation
J3_9YDD_031No text annotation
J3_9YDD_033No text annotation
J3_9YDD_034No text annotation
J3_9YDD_035No text annotation
J3_9YDD_037No text annotation
J3_9YDD_038No text annotation
J3_9YDD_039No text annotation
J3_9YDD_040No text annotation
J3_9YDD_041No text annotation
J4_9YDD_001No text annotation
J4_9YDD_002No text annotation
J4_9YDD_004No text annotation
J4_9YDD_005No text annotation
J4_9YDD_006No text annotation
J4_9YDD_007No text annotation
J4_9YDD_008No text annotation
J4_9YDD_009No text annotation
J4_9YDD_011No text annotation
J4_9YDD_012No text annotation
J5_9YDD_001No text annotation
J5_9YDD_002No text annotation
J5_9YDD_003No text annotation
J5_9YDD_005No text annotation
J5_9YDD_006No text annotation
J5_9YDD_008No text annotation
J6_9YDD_001No text annotation
J6_9YDD_002No text annotation
J7_9YDD_001No text annotation

Coloring options:
Copyright 2026 BGSU RNA group. Database contents are licensed under Creative Commons Attribution 4.0 International (CC BY 4.0). Page generated in 0.054 s