3JCD Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_3JCD_001 | 1/8/13:22 | No text annotation | geometric HL_2ZZN_004 HL_09452.1 | |
| HL_3JCD_118 | 1/8/31:39 | tRNA anticodon loop | geometric HL_6UFG_007 HL_06059.6 | |
| HL_3JCD_003 | 1/8/53:61 | T-loop with 2 stacked bulged bases | geometric HL_3WFS_003 HL_28252.8 | |
| HL_3JCD_004 | 1/9/13:22 | tRNA D-loop | geometric HL_3AMU_001 HL_09260.2 | |
| HL_3JCD_005 | 1/9/30:40 | No text annotation | geometric HL_8C3A_054 NA | |
| HL_3JCD_006 | 1/9/53:61 | No text annotation | geometric HL_5TBW_051 NA | |
| HL_3JCD_007 | 1/A/59:68 | No text annotation | homologous HL_5J7L_134 HL_35677.3 | |
| HL_3JCD_008 | 1/A/87:95 | No text annotation | homologous HL_5J7L_135 HL_80241.1 | |
| HL_3JCD_009 | 1/A/123:128 | No text annotation | homologous HL_4WF9_003 HL_75660.5 | |
| HL_3JCD_119 | 1/A/137:142 | No text annotation | ||
| HL_3JCD_011 | 1/A/158:168 | No text annotation | homologous HL_5J7L_138 HL_68257.1 | |
| HL_3JCD_012 | 1/A/194:201 | No text annotation | homologous HL_5J7L_139 HL_30068.2 | |
| HL_3JCD_013 | 1/A/225:230 | No text annotation | homologous HL_5J7L_140 HL_62934.1 | |
| HL_3JCD_014 | 1/A/246:252 | No text annotation | homologous HL_5J7L_141 HL_37369.2 | |
| HL_3JCD_015 | 1/A/305:312 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_142 HL_01609.3 | |
| HL_3JCD_016 | 1/A/319:323 | No text annotation | homologous HL_4WF9_011 HL_75660.5 | |
| HL_3JCD_017 | 1/A/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 HL_27670.2 | |
| HL_3JCD_120 | 1/A/382:392 | No text annotation | homologous HL_5J7L_145 HL_91503.7 | |
| HL_3JCD_110 | 1/A/410:417 | Pseudoknot geometry | homologous HL_5J7L_146 HL_30680.3 | |
| HL_3JCD_020 | 1/A/462:467 | GNRA | homologous HL_7A0S_015 HL_37824.7 | |
| HL_3JCD_021 | 1/A/487:493 | GNRA | homologous HL_5J7L_148 HL_37824.7 | |
| HL_3JCD_022 | 1/A/543:550 | No text annotation | homologous HL_5J7L_149 HL_09452.1 | |
| HL_3JCD_023 | 1/A/566:575 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_150 HL_28252.8 | |
| HL_3JCD_024 | 1/A/611:617 | No text annotation | homologous HL_5J7L_151 HL_80922.2 | |
| HL_3JCD_025 | 1/A/629:634 | GNRA | homologous HL_5J7L_152 HL_37824.7 | |
| HL_3JCD_026 | 1/A/641:647 | No text annotation | homologous HL_5J7L_153 HL_13529.1 | |
| HL_3JCD_027 | 1/A/712:719 | GNRA wlth tandem sheared | homologous HL_5J7L_154 HL_81538.2 | |
| HL_3JCD_028 | 1/A/744:753 | No text annotation | homologous HL_4WF9_023 HL_88205.2 | |
| HL_3JCD_029 | 1/A/779:785 | No text annotation | homologous HL_5J7L_156 HL_87954.2 | |
| HL_3JCD_030 | 1/A/826:831 | No text annotation | homologous HL_4WF9_025 HL_55195.3 | |
| HL_3JCD_031 | 1/A/875:902 | No text annotation | ||
| HL_3JCD_032 | 1/A/955:962 | GNRA | homologous HL_4WF9_027 HL_37824.7 | |
| HL_3JCD_033 | 1/A/978:985 | No text annotation | homologous HL_4WF9_028 HL_42998.2 | |
| HL_3JCD_034 | 1/A/1063:1075 | No text annotation | geometric HL_7KI3_001 HL_75660.5 | |
| HL_3JCD_035 | 1/A/1092:1099 | GNRA wlth tandem sheared | homologous HL_6PRV_002 HL_81538.2 | |
| HL_3JCD_036 | 1/A/1172:1177 | No text annotation | ||
| HL_3JCD_037 | 1/A/1222:1227 | GNRA | homologous HL_5J7L_164 HL_37824.7 | |
| HL_3JCD_038 | 1/A/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 HL_28252.8 | |
| HL_3JCD_039 | 1/A/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 HL_57176.2 | |
| HL_3JCD_040 | 1/A/1363:1368 | GNRA | homologous HL_7RQB_035 NA | |
| HL_3JCD_041 | 1/A/1389:1398 | No text annotation | homologous HL_5J7L_168 HL_81545.2 | |
| HL_3JCD_042 | 1/A/1451:1459 | Mini UNCG | geometric HL_5U30_001 HL_48778.2 | |
| HL_3JCD_043 | 1/A/1492:1498 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 HL_57176.2 | |
| HL_3JCD_121 | 1/A/1531:1540 | No text annotation | ||
| HL_3JCD_045 | 1/A/1565:1568 | No text annotation | homologous HL_7RQB_039 NA | |
| HL_3JCD_046 | 1/A/1612:1619 | No text annotation | homologous HL_4WF9_038 HL_89567.2 | |
| HL_3JCD_047 | 1/A/1630:1636 | GNRA | homologous HL_5J7L_174 HL_37824.7 | |
| HL_3JCD_048 | 1/A/1691:1696 | UNCG | geometric HL_4LFB_011 HL_34617.5 | |
| HL_3JCD_049 | 1/A/1728:1731 | No text annotation | geometric HL_5J7L_176 HL_32346.4 | |
| HL_3JCD_050 | 1/A/1752:1756 | No text annotation | homologous HL_7RQB_044 NA | |
| HL_3JCD_051 | 1/A/1777:1787 | No text annotation | homologous HL_4WF9_043 HL_01962.2 | |
| HL_3JCD_052 | 1/A/1806:1811 | GNRA related | homologous HL_5J7L_179 HL_04783.2 | |
| HL_3JCD_053 | 1/A/1868:1873 | GNRA variation | homologous HL_5J7L_180 HL_37824.7 | |
| HL_3JCD_054 | 1/A/1910:1920 | No text annotation | geometric HL_5TBW_049 NA | |
| HL_3JCD_055 | 1/A/1949:1957 | No text annotation | homologous HL_4WF9_046 HL_20167.2 | |
| HL_3JCD_056 | 1/A/2027:2036 | No text annotation | homologous HL_7RQB_050 NA | |
| HL_3JCD_122 | 1/A/2124:2174 | No text annotation | ||
| HL_3JCD_058 | 1/A/2209:2215 | No text annotation | homologous HL_5J7L_185 HL_49922.4 | |
| HL_3JCD_059 | 1/A/2248:2256 | No text annotation | homologous HL_7A0S_052 HL_85367.2 | |
| HL_3JCD_060 | 1/A/2264:2276 | No text annotation | homologous HL_7RQB_054 NA | |
| HL_3JCD_123 | 1/A/2304:2312 | No text annotation | homologous HL_5J7L_219 HL_50860.2 | |
| HL_3JCD_062 | 1/A/2324:2331 | Pseudoknot geometry | homologous HL_5J7L_189 HL_93324.4 | |
| HL_3JCD_063 | 1/A/2356:2361 | GNRA | homologous HL_5J7L_190 HL_37824.7 | |
| HL_3JCD_064 | 1/A/2374:2379 | GNRA | homologous HL_4WF9_054 HL_37824.7 | |
| HL_3JCD_065 | 1/A/2404:2413 | No text annotation | homologous HL_5J7L_192 HL_53454.2 | |
| HL_3JCD_066 | 1/A/2471:2479 | No text annotation | homologous HL_4WF9_056 HL_32735.2 | |
| HL_3JCD_067 | 1/A/2528:2535 | No text annotation | homologous HL_5J7L_194 HL_31585.4 | |
| HL_3JCD_068 | 1/A/2551:2557 | No text annotation | homologous HL_5J7L_195 HL_30068.2 | |
| HL_3JCD_069 | 1/A/2594:2599 | GNRA | homologous HL_7A0S_062 HL_37824.7 | |
| HL_3JCD_070 | 1/A/2658:2663 | GNRA | homologous HL_4WF9_060 HL_37824.7 | |
| HL_3JCD_071 | 1/A/2701:2706 | Ribsomal LSU H95 | homologous HL_5J7L_198 HL_65794.5 | |
| HL_3JCD_072 | 1/A/2745:2759 | No text annotation | homologous HL_5J7L_199 HL_74055.2 | |
| HL_3JCD_073 | 1/A/2796:2799 | Mini UNCG | geometric HL_4V88_192 NA | |
| HL_3JCD_074 | 1/A/2819:2827 | No text annotation | homologous HL_5J7L_201 HL_64690.6 | |
| HL_3JCD_075 | 1/A/2856:2861 | GNRA | homologous HL_5J7L_202 HL_37824.7 | |
| HL_3JCD_076 | 1/B/38:44 | No text annotation | geometric HL_4V9F_071 HL_47787.2 | |
| HL_3JCD_077 | 1/B/86:90 | Mini UNCG | homologous HL_5J7L_204 HL_48778.2 | |
| HL_3JCD_078 | 1/a/12:22 | No text annotation | homologous HL_5J7L_001 HL_89881.5 | |
| HL_3JCD_079 | 1/a/75:95 | No text annotation | ||
| HL_3JCD_080 | 1/a/158:163 | GNRA | homologous HL_5J7L_003 HL_37824.7 | |
| HL_3JCD_124 | 1/a/186:191 | GNRA | homologous HL_5J7L_004 HL_37824.7 | |
| HL_3JCD_082 | 1/a/206:213 | Mini UNCG | geometric HL_4YAZ_004 HL_48778.2 | |
| HL_3JCD_083 | 1/a/259:267 | GNRA related | homologous HL_5J7L_006 HL_84299.4 | |
| HL_3JCD_084 | 1/a/296:301 | GNRA | homologous HL_5J7L_007 HL_37824.7 | |
| HL_3JCD_085 | 1/a/320:333 | No text annotation | homologous HL_4LFB_008 HL_81205.3 | |
| HL_3JCD_086 | 1/a/342:347 | UNCG | homologous HL_5J7L_009 HL_34617.5 | |
| HL_3JCD_113 | 1/a/378:385 | tRNA anticodon loop | geometric HL_3RG5_006 HL_04259.3 | |
| HL_3JCD_087 | 1/a/379:384 | GNRA | homologous HL_5J7L_010 HL_37824.7 | |
| HL_3JCD_088 | 1/a/419:424 | UNCG | homologous HL_4LFB_011 HL_34617.5 | |
| HL_3JCD_125 | 1/a/460:472 | No text annotation | ||
| HL_3JCD_090 | 1/a/522:527 | No text annotation | geometric HL_5J7L_143 HL_75660.5 | |
| HL_3JCD_091 | 1/a/617:623 | No text annotation | homologous HL_5J7L_014 HL_10453.3 | |
| HL_3JCD_092 | 1/a/689:698 | No text annotation | homologous HL_5J7L_015 HL_75293.5 | |
| HL_3JCD_093 | 1/a/726:731 | GNRA | homologous HL_4LFB_016 HL_37824.7 | |
| HL_3JCD_094 | 1/a/786:796 | No text annotation | homologous HL_4LFB_017 HL_75293.5 | |
| HL_3JCD_095 | 1/a/840:846 | No text annotation | ||
| HL_3JCD_096 | 1/a/862:867 | GNRA | homologous HL_5J7L_019 HL_37824.7 | |
| HL_3JCD_117 | 1/a/896:903 | GNRA with near cWW | geometric HL_2IL9_007 NA | |
| HL_3JCD_097 | 1/a/897:902 | GNRA | homologous HL_4LFB_020 HL_37824.7 | |
| HL_3JCD_098 | 1/a/963:972 | No text annotation | homologous HL_4LFB_021 HL_50779.4 | |
| HL_3JCD_099 | 1/a/1012:1017 | GNRA | homologous HL_4LFB_022 HL_37824.7 | |
| HL_3JCD_126 | 1/a/1028:1033 | No text annotation | ||
| HL_3JCD_101 | 1/a/1076:1081 | GNRA | homologous HL_4LFB_024 HL_37824.7 | |
| HL_3JCD_102 | 1/a/1089:1096 | T-loop related | homologous HL_5J7L_024 HL_77436.5 | |
| HL_3JCD_103 | 1/a/1134:1140 | No text annotation | homologous HL_6CZR_097 NA | |
| HL_3JCD_127 | 1/a/1165:1171 | GNRA | homologous HL_5J7L_026 HL_93535.1 | |
| HL_3JCD_105 | 1/a/1265:1270 | GNRA | homologous HL_4LFB_028 HL_37824.7 | |
| HL_3JCD_106 | 1/a/1314:1323 | T-loop with 3 stacked bulged bases | homologous HL_6CZR_100 NA | |
| HL_3JCD_128 | 1/a/1356:1366 | No text annotation | homologous HL_4LFB_030 HL_06226.4 | |
| HL_3JCD_108 | 1/a/1449:1454 | UNCG | homologous HL_4LFB_031 HL_34617.5 | |
| HL_3JCD_109 | 1/a/1515:1520 | GNRA | homologous HL_4LFB_032 HL_37824.7 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_3JCD_002 | No text annotation | ||
| HL_3JCD_010 | No text annotation | ||
| HL_3JCD_018 | No text annotation | ||
| HL_3JCD_019 | No text annotation | ||
| HL_3JCD_044 | No text annotation | ||
| HL_3JCD_057 | No text annotation | ||
| HL_3JCD_111 | No text annotation | ||
| HL_3JCD_061 | No text annotation | ||
| HL_3JCD_081 | GNRA with extra cWW | ||
| HL_3JCD_112 | tRNA D-loop | ||
| HL_3JCD_114 | No text annotation | ||
| HL_3JCD_089 | No text annotation | ||
| HL_3JCD_115 | No text annotation | ||
| HL_3JCD_116 | No text annotation | ||
| HL_3JCD_100 | No text annotation | ||
| HL_3JCD_104 | No text annotation | ||
| HL_3JCD_107 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_3JCD_001 | 1/A/24:30, 1/A/510:516 | Triple sheared with non-canonical cWW | geometric IL_7RQB_001 NA | |
| IL_3JCD_002 | 1/A/36:37, 1/A/442:444 | Single bulged A | homologous IL_7RQB_002 NA | |
| IL_3JCD_003 | 1/A/81:85, 1/A/97:105 | No text annotation | homologous IL_5J7L_248 IL_37015.1 | |
| IL_3JCD_004 | 1/A/183:184, 1/A/212:214 | Single stack bend | homologous IL_5J7L_249 IL_90729.1 | |
| IL_3JCD_005 | 1/A/188:194, 1/A/201:208 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7A0S_006 IL_04346.10 | |
| IL_3JCD_006 | 1/A/239:245, 1/A/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 IL_26307.2 | |
| IL_3JCD_196 | 1/A/269:271, 1/A/366:370 | No text annotation | homologous IL_5J7L_252 IL_47972.1 | |
| IL_3JCD_008 | 1/A/274:281, 1/A/359:363 | No text annotation | homologous IL_5J7L_253 IL_77870.1 | |
| IL_3JCD_009 | 1/A/293:295, 1/A/343:347 | No text annotation | homologous IL_5J7L_254 IL_69440.3 | |
| IL_3JCD_010 | 1/A/481:484, 1/A/496:509 | No text annotation | homologous IL_5J7L_255 IL_81516.2 | |
| IL_3JCD_011 | 1/A/536:539, 1/A/554:557 | Double sheared | homologous IL_5J7L_256 IL_09705.15 | |
| IL_3JCD_012 | 1/A/564:566, 1/A/575:577 | Isolated non-canonical cWW pair | homologous IL_7A0S_011 IL_07785.1 | |
| IL_3JCD_013 | 1/A/606:610, 1/A/618:622 | AAA cross-strand stack | homologous IL_7RQB_016 NA | |
| IL_3JCD_014 | 1/A/672:674, 1/A/806:808 | Isolated non-canonical cWW pair | homologous IL_7A0S_014 IL_87907.2 | |
| IL_3JCD_015 | 1/A/674:678, 1/A/799:806 | tHW-tHW cross-strand stack | geometric IL_5J7L_260 IL_54041.2 | |
| IL_3JCD_016 | 1/A/697:698, 1/A/763:765 | Single bulged A | homologous IL_5J7L_261 IL_31462.6 | |
| IL_3JCD_017 | 1/A/702:703, 1/A/728:730 | Single bulged G | geometric IL_4V9F_026 IL_00225.13 | |
| IL_3JCD_018 | 1/A/703:707, 1/A/724:728 | Triple sheared | homologous IL_7RQB_021 NA | |
| IL_3JCD_019 | 1/A/738:740, 1/A/757:758 | Major groove platform | homologous IL_4WF9_026 IL_48076.6 | |
| IL_3JCD_020 | 1/A/775:777, 1/A/787:791 | Multiple bulged bases | homologous IL_7RQB_023 NA | |
| IL_3JCD_021 | 1/A/837:838, 1/A/940:942 | Single stack bend | homologous IL_5J7L_266 IL_90729.1 | |
| IL_3JCD_022 | 1/A/844:847, 1/A/933:934 | Other IL | geometric IL_5J7L_267 IL_90729.1 | |
| IL_3JCD_170 | 1/A/844:848, 1/A/930:934 | No text annotation | homologous IL_5J7L_399 IL_96236.1 | |
| IL_3JCD_023 | 1/A/847:848, 1/A/930:933 | Stack outside cWW | homologous IL_5J7L_268 IL_56987.1 | |
| IL_3JCD_171 | 1/A/850:851, 1/A/926:928 | Single stack bend | homologous IL_5J7L_269 IL_26793.1 | |
| IL_3JCD_025 | 1/A/856:862, 1/A/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_5J7L_270 IL_29198.2 | |
| IL_3JCD_026 | 1/A/862:863, 1/A/913:915 | Single bulged G | homologous IL_5J7L_271 IL_00225.13 | |
| IL_3JCD_172 | 1/A/864:868, 1/A/909:912 | C-loop | homologous IL_5J7L_272 IL_26222.2 | |
| IL_3JCD_197 | 1/A/870:872, 1/A/905:907 | Isolated non-canonical cWW pair | homologous IL_5J7L_273 IL_28037.2 | |
| IL_3JCD_029 | 1/A/994:996, 1/A/1159:1160 | Single bulged C | homologous IL_7RQB_035 NA | |
| IL_3JCD_030 | 1/A/998:1002, 1/A/1153:1157 | UAA/GAN | homologous IL_7RQB_036 NA | |
| IL_3JCD_031 | 1/A/1003:1011, 1/A/1150:1152 | No text annotation | ||
| IL_3JCD_198 | 1/A/1004:1013, 1/A/1149:1151 | No text annotation | ||
| IL_3JCD_032 | 1/A/1011:1013, 1/A/1149:1150 | Single bulged U | geometric IL_5J7L_279 IL_89505.4 | |
| IL_3JCD_033 | 1/A/1018:1024, 1/A/1140:1144 | Kink-turn related | homologous IL_4WF9_039 IL_57188.5 | |
| IL_3JCD_034 | 1/A/1024:1030, 1/A/1124:1140 | No text annotation | geometric IL_5J7L_281 IL_50715.3 | |
| IL_3JCD_035 | 1/A/1031:1034, 1/A/1121:1123 | Isolated non-canonical cWW pair | homologous IL_4WF9_041 IL_57744.1 | |
| IL_3JCD_036 | 1/A/1038:1041, 1/A/1114:1117 | Tandem non-canonical cWW pairs | homologous IL_5J7L_283 IL_85033.2 | |
| IL_3JCD_037 | 1/A/1043:1051, 1/A/1108:1112 | Kink-turn | homologous IL_5J7L_284 IL_99692.2 | |
| IL_3JCD_174 | 1/A/1058:1062, 1/A/1076:1080 | No text annotation | homologous IL_5J7L_384 NA | |
| IL_3JCD_039 | 1/A/1087:1090, 1/A/1101:1102 | No text annotation | ||
| IL_3JCD_040 | 1/A/1196:1199, 1/A/1246:1250 | Tandem non-canonical cWW pairs | geometric IL_3WBM_002 IL_85033.2 | |
| IL_3JCD_199 | 1/A/1202:1206, 1/A/1240:1243 | No text annotation | homologous IL_5J7L_287 IL_91920.1 | |
| IL_3JCD_042 | 1/A/1208:1215, 1/A/1234:1238 | Kink-turn | homologous IL_7RQB_047 NA | |
| IL_3JCD_043 | 1/A/1262:1269, 1/A/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 IL_04346.10 | |
| IL_3JCD_200 | 1/A/1310:1313, 1/A/1603:1604 | Major groove platform; stack outside cWW | geometric IL_4WF9_049 IL_50694.7 | |
| IL_3JCD_044 | 1/A/1319:1323, 1/A/1331:1333 | C-loop | homologous IL_5J7L_291 IL_63596.11 | |
| IL_3JCD_045 | 1/A/1351:1355, 1/A/1376:1380 | UAA/GAN | homologous IL_5J7L_292 IL_89021.2 | |
| IL_3JCD_046 | 1/A/1357:1361, 1/A/1370:1374 | tSH-tHW-tHS | homologous IL_5J7L_293 IL_17136.7 | |
| IL_3JCD_047 | 1/A/1413:1415, 1/A/1587:1589 | Isolated non-canonical cWW pair | geometric IL_5ED2_004 NA | |
| IL_3JCD_048 | 1/A/1415:1416, 1/A/1582:1587 | No text annotation | geometric IL_5J7L_294 IL_87211.1 | |
| IL_3JCD_049 | 1/A/1417:1421, 1/A/1577:1581 | UAA/GAN | homologous IL_5J7L_295 IL_38507.2 | |
| IL_3JCD_050 | 1/A/1432:1435, 1/A/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 IL_58112.2 | |
| IL_3JCD_201 | 1/A/1437:1440, 1/A/1551:1555 | tSH-tHW | homologous IL_5J7L_297 IL_99646.2 | |
| IL_3JCD_052 | 1/A/1450:1451, 1/A/1459:1461 | Single bulged U | homologous IL_5J7L_298 IL_89505.4 | |
| IL_3JCD_053 | 1/A/1468:1471, 1/A/1520:1524 | No text annotation | homologous IL_5J7L_299 IL_68574.4 | |
| IL_3JCD_054 | 1/A/1474:1479, 1/A/1512:1517 | No text annotation | ||
| IL_3JCD_202 | 1/A/1481:1482, 1/A/1507:1510 | 180 degree turn | homologous IL_5J7L_301 IL_00881.1 | |
| IL_3JCD_056 | 1/A/1489:1491, 1/A/1499:1500 | Single bulged A | homologous IL_5J7L_302 IL_31462.6 | |
| IL_3JCD_057 | 1/A/1526:1529, 1/A/1542:1546 | UAA/GAN variation | homologous IL_5J7L_303 IL_23774.1 | |
| IL_3JCD_058 | 1/A/1651:1656, 1/A/2004:2006 | No text annotation | homologous IL_7RQB_064 NA | |
| IL_3JCD_059 | 1/A/1663:1665, 1/A/1995:1997 | Isolated tWW turn | homologous IL_4WF9_063 IL_67095.2 | |
| IL_3JCD_060 | 1/A/1666:1669, 1/A/1993:1994 | Major groove platform; stack outside cWW | geometric IL_5J7L_306 IL_50694.7 | |
| IL_3JCD_176 | 1/A/1666:1674, 1/A/1990:1994 | No text annotation | homologous IL_5J7L_386 IL_22854.4 | |
| IL_3JCD_061 | 1/A/1669:1674, 1/A/1990:1993 | Intercalated tWH | homologous IL_7A0S_062 IL_76758.2 | |
| IL_3JCD_062 | 1/A/1686:1691, 1/A/1696:1702 | tSH-tSH-tHH-tHS | homologous IL_5J7L_308 IL_47346.2 | |
| IL_3JCD_063 | 1/A/1712:1718, 1/A/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_5J7L_309 IL_88269.4 | |
| IL_3JCD_203 | 1/A/1720:1724, 1/A/1736:1740 | Triple sheared | homologous IL_5J7L_310 IL_50730.2 | |
| IL_3JCD_065 | 1/A/1727:1728, 1/A/1731:1733 | Single bulged C | homologous IL_5J7L_311 IL_61258.15 | |
| IL_3JCD_066 | 1/A/1770:1771, 1/A/1980:1982 | Single bulged A | homologous IL_7A0S_064 IL_31462.6 | |
| IL_3JCD_067 | 1/A/1798:1804, 1/A/1813:1821 | Kink-turn related | homologous IL_5J7L_313 IL_17069.5 | |
| IL_3JCD_068 | 1/A/1837:1840, 1/A/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 IL_95583.2 | |
| IL_3JCD_177 | 1/A/1837:1842, 1/A/1898:1903 | No text annotation | ||
| IL_3JCD_069 | 1/A/1840:1842, 1/A/1898:1902 | No text annotation | ||
| IL_3JCD_070 | 1/A/1846:1849, 1/A/1893:1894 | Minor groove platform | homologous IL_7RQB_073 NA | |
| IL_3JCD_178 | 1/A/1851:1860, 1/A/1882:1891 | No text annotation | homologous IL_5J7L_387 IL_61249.1 | |
| IL_3JCD_071 | 1/A/1864:1868, 1/A/1873:1878 | Triple sheared related | geometric IL_4V9F_018 IL_97631.1 | |
| IL_3JCD_072 | 1/A/1933:1934, 1/A/1964:1967 | Bulged stacked bases | homologous IL_7RQB_076 NA | |
| IL_3JCD_204 | 1/A/1934:1945, 1/A/1961:1964 | No text annotation | homologous IL_5J7L_319 IL_42218.2 | |
| IL_3JCD_074 | 1/A/2050:2053, 1/A/2616:2618 | No text annotation | geometric IL_6CZR_136 NA | |
| IL_3JCD_075 | 1/A/2054:2056, 1/A/2612:2615 | No text annotation | homologous IL_5J7L_321 IL_83389.2 | |
| IL_3JCD_076 | 1/A/2067:2069, 1/A/2442:2443 | Single bulged U | homologous IL_4WF9_080 IL_89505.4 | |
| IL_3JCD_077 | 1/A/2070:2071, 1/A/2438:2441 | Minor groove platform | homologous IL_4WF9_081 IL_51454.3 | |
| IL_3JCD_078 | 1/A/2081:2083, 1/A/2236:2239 | Isolated tHS basepair with bulges | homologous IL_5J7L_325 IL_85599.2 | |
| IL_3JCD_079 | 1/A/2085:2087, 1/A/2232:2234 | No text annotation | homologous IL_7RQB_083 NA | |
| IL_3JCD_080 | 1/A/2099:2101, 1/A/2189:2190 | Single stack bend | geometric IL_4WF9_089 IL_26793.1 | |
| IL_3JCD_081 | 1/A/2101:2102, 1/A/2187:2189 | Single stack bend | geometric IL_7A0S_054 IL_26793.1 | |
| IL_3JCD_082 | 1/A/2103:2110, 1/A/2179:2186 | No text annotation | ||
| IL_3JCD_083 | 1/A/2110:2123, 1/A/2175:2179 | No text annotation | ||
| IL_3JCD_084 | 1/A/2202:2204, 1/A/2220:2221 | Single bulged U | homologous IL_5J7L_331 IL_89505.4 | |
| IL_3JCD_085 | 1/A/2350:2353, 1/A/2364:2367 | Double sheared | homologous IL_5J7L_333 IL_09705.15 | |
| IL_3JCD_086 | 1/A/2401:2403, 1/A/2414:2415 | No text annotation | ||
| IL_3JCD_205 | 1/A/2453:2454, 1/A/2498:2500 | Single stack bend | homologous IL_5J7L_391 IL_26793.1 | |
| IL_3JCD_087 | 1/A/2454:2455, 1/A/2496:2498 | Major groove platform | homologous IL_4WF9_090 IL_48076.6 | |
| IL_3JCD_088 | 1/A/2457:2459, 1/A/2493:2494 | Major groove platform | homologous IL_7A0S_085 IL_48076.6 | |
| IL_3JCD_089 | 1/A/2459:2461, 1/A/2489:2493 | Major groove minor groove platform with extra cWW | geometric IL_4WF9_092 IL_51387.2 | |
| IL_3JCD_090 | 1/A/2466:2470, 1/A/2480:2484 | Triple sheared | homologous IL_5J7L_338 IL_17948.2 | |
| IL_3JCD_091 | 1/A/2507:2508, 1/A/2580:2582 | Major groove platform | homologous IL_7A0S_088 IL_07039.3 | |
| IL_3JCD_092 | 1/A/2510:2512, 1/A/2574:2578 | Isolated non-canonical cWW with bulges | homologous IL_5J7L_340 IL_07785.1 | |
| IL_3JCD_206 | 1/A/2512:2513, 1/A/2571:2574 | No text annotation | homologous IL_5J7L_341 IL_42626.2 | |
| IL_3JCD_094 | 1/A/2522:2523, 1/A/2540:2543 | Major groove platform with intercalation | homologous IL_5J7L_342 IL_02555.1 | |
| IL_3JCD_095 | 1/A/2591:2592, 1/A/2601:2603 | Single bulged A | homologous IL_5J7L_344 IL_31462.6 | |
| IL_3JCD_096 | 1/A/2636:2640, 1/A/2774:2782 | tSH-tHS-tHW | homologous IL_5J7L_345 IL_04638.3 | |
| IL_3JCD_097 | 1/A/2652:2658, 1/A/2663:2668 | Sarcin-Ricin target in LSU H95; G-bulge | homologous IL_5J7L_346 IL_16458.4 | |
| IL_3JCD_207 | 1/A/2680:2684, 1/A/2725:2727 | C-loop | homologous IL_4WF9_101 IL_63596.11 | |
| IL_3JCD_099 | 1/A/2687:2691, 1/A/2718:2722 | No text annotation | homologous IL_4WF9_102 IL_23774.1 | |
| IL_3JCD_100 | 1/A/2695:2696, 1/A/2711:2714 | Multiple bulged bases | homologous IL_5J7L_349 IL_42626.2 | |
| IL_3JCD_101 | 1/A/2737:2742, 1/A/2762:2767 | UAA/GAN with extra cWW | homologous IL_5J7L_350 IL_49767.8 | |
| IL_3JCD_102 | 1/A/2795:2796, 1/A/2799:2801 | Single bulged A | geometric IL_7RQB_019 NA | |
| IL_3JCD_103 | 1/A/2806:2811, 1/A/2889:2892 | No text annotation | homologous IL_5J7L_351 IL_29471.1 | |
| IL_3JCD_104 | 1/A/2838:2839, 1/A/2878:2880 | Major groove intercalation | homologous IL_5J7L_352 IL_66635.5 | |
| IL_3JCD_105 | 1/A/2843:2846, 1/A/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 IL_64231.5 | |
| IL_3JCD_106 | 1/A/2847:2852, 1/A/2865:2869 | tHS double platform | homologous IL_7RQB_110 NA | |
| IL_3JCD_107 | 1/B/17:18, 1/B/65:67 | Major groove intercalation | homologous IL_5J7L_355 IL_31462.6 | |
| IL_3JCD_108 | 1/B/23:28, 1/B/56:60 | No text annotation | homologous IL_5J7L_356 IL_18472.4 | |
| IL_3JCD_109 | 1/B/30:31, 1/B/51:54 | Major groove minor groove platform; mini C-loop | homologous IL_7RQB_113 NA | |
| IL_3JCD_110 | 1/B/34:38, 1/B/44:48 | Symmetric double minor groove platform | homologous IL_5J7L_358 IL_58103.11 | |
| IL_3JCD_111 | 1/B/71:79, 1/B/97:105 | Bacterial 5S Loop E | homologous IL_5J7L_359 IL_56455.6 | |
| IL_3JCD_112 | 1/a/30:32, 1/a/552:553 | Single bulged G | homologous IL_5J7L_001 IL_00225.13 | |
| IL_3JCD_181 | 1/a/44:45, 1/a/396:398 | Single bulged A | geometric IL_5J7L_002 IL_31462.6 | |
| IL_3JCD_113 | 1/a/47:52, 1/a/359:361 | No text annotation | homologous IL_4LFB_003 IL_14177.2 | |
| IL_3JCD_114 | 1/a/54:56, 1/a/356:357 | Minor groove platform | homologous IL_6CZR_116 NA | |
| IL_3JCD_115 | 1/a/63:66, 1/a/103:104 | Multiple bulged bases | geometric IL_6CZR_117 NA | |
| IL_3JCD_116 | 1/a/66:73, 1/a/97:103 | No text annotation | ||
| IL_3JCD_208 | 1/a/128:131, 1/a/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 IL_57744.1 | |
| IL_3JCD_118 | 1/a/132:136, 1/a/227:230 | Minor groove platform related | geometric IL_5J7L_010 IL_64231.5 | |
| IL_3JCD_119 | 1/a/144:146, 1/a/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 IL_10167.6 | |
| IL_3JCD_120 | 1/a/147:153, 1/a/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 IL_80604.6 | |
| IL_3JCD_121 | 1/a/203:206, 1/a/213:214 | Minor groove platform | geometric IL_7RQB_073 NA | |
| IL_3JCD_122 | 1/a/242:248, 1/a/276:284 | No text annotation | ||
| IL_3JCD_185 | 1/a/242:249, 1/a/275:284 | No text annotation | ||
| IL_3JCD_209 | 1/a/249:252, 1/a/274:275 | No text annotation | homologous IL_6CZR_405 NA | |
| IL_3JCD_186 | 1/a/292:293, 1/a/304:308 | C-loop | homologous IL_4LFB_013 IL_03109.3 | |
| IL_3JCD_210 | 1/a/367:369, 1/a/392:393 | Single bulged U | geometric IL_5J7L_017 IL_89505.4 | |
| IL_3JCD_125 | 1/a/371:375, 1/a/389:390 | C-loop | geometric IL_5J7L_018 IL_03109.3 | |
| IL_3JCD_126 | 1/a/375:376, 1/a/387:389 | Single bulged G | homologous IL_5J7L_019 IL_00225.13 | |
| IL_3JCD_187 | 1/a/409:416, 1/a/427:433 | No text annotation | homologous IL_4LFB_017 IL_28026.3 | |
| IL_3JCD_128 | 1/a/440:442, 1/a/492:497 | No text annotation | homologous IL_5J7L_021 IL_33323.1 | |
| IL_3JCD_129 | 1/a/446:450, 1/a/483:488 | tSH-tHW-tWW | homologous IL_5J7L_022 IL_88269.4 | |
| IL_3JCD_130 | 1/a/450:455, 1/a/477:483 | No text annotation | geometric IL_5J7L_023 IL_70801.1 | |
| IL_3JCD_211 | 1/a/450:460, 1/a/472:483 | No text annotation | ||
| IL_3JCD_131 | 1/a/504:511, 1/a/540:541 | SSU/LSU pseudoknot | homologous IL_4LFB_020 IL_41203.4 | |
| IL_3JCD_132 | 1/a/515:521, 1/a/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_3JCD_133 | 1/a/569:575, 1/a/880:881 | No text annotation | homologous IL_6CZR_134 NA | |
| IL_3JCD_134 | 1/a/580:584, 1/a/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 IL_17136.7 | |
| IL_3JCD_135 | 1/a/594:596, 1/a/644:645 | Major groove platform | homologous IL_5J7L_028 IL_48076.6 | |
| IL_3JCD_136 | 1/a/596:598, 1/a/640:644 | No text annotation | homologous IL_6CZR_136 NA | |
| IL_3JCD_212 | 1/a/605:612, 1/a/628:633 | No text annotation | homologous IL_5J7L_030 IL_78349.3 | |
| IL_3JCD_138 | 1/a/654:655, 1/a/751:754 | Major groove platform; stack outside cWW | homologous IL_4LFB_027 IL_50694.7 | |
| IL_3JCD_139 | 1/a/658:659, 1/a/746:748 | Single stack bend | homologous IL_5J7L_032 IL_26793.1 | |
| IL_3JCD_140 | 1/a/662:666, 1/a/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 IL_85033.2 | |
| IL_3JCD_141 | 1/a/684:688, 1/a/699:706 | Kink-turn | homologous IL_5J7L_035 IL_01488.3 | |
| IL_3JCD_142 | 1/a/774:778, 1/a/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.2 | |
| IL_3JCD_143 | 1/a/779:783, 1/a/799:803 | tSH-tHW-tHS | homologous IL_4LFB_033 IL_17136.7 | |
| IL_3JCD_213 | 1/a/887:894, 1/a/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 IL_41756.4 | |
| IL_3JCD_145 | 1/a/922:924, 1/a/1392:1395 | Isolated non-canonical cWW pair | geometric IL_3TD0_002 IL_57744.1 | |
| IL_3JCD_146 | 1/a/925:927, 1/a/1390:1391 | Single bulged G | homologous IL_5J7L_040 IL_00225.13 | |
| IL_3JCD_147 | 1/a/933:935, 1/a/1380:1384 | Minor groove platform | homologous IL_5J7L_041 IL_47078.3 | |
| IL_3JCD_148 | 1/a/953:954, 1/a/1226:1228 | No text annotation | homologous IL_6CZR_150 NA | |
| IL_3JCD_191 | 1/a/953:955, 1/a/1225:1228 | Isolated non-canonical cWW with bulges | geometric IL_5ML7_010 IL_07785.1 | |
| IL_3JCD_192 | 1/a/997:999, 1/a/1041:1044 | No text annotation | ||
| IL_3JCD_150 | 1/a/1048:1050, 1/a/1208:1209 | Single bulged U | homologous IL_5J7L_046 IL_89505.4 | |
| IL_3JCD_151 | 1/a/1052:1056, 1/a/1204:1206 | Isolated cWS basepair | homologous IL_4LFB_044 IL_76319.5 | |
| IL_3JCD_193 | 1/a/1057:1058, 1/a/1199:1203 | Minor groove platform | homologous IL_4LFB_045 IL_95583.2 | |
| IL_3JCD_153 | 1/a/1124:1128, 1/a/1144:1149 | No text annotation | homologous IL_5J7L_051 IL_06691.1 | |
| IL_3JCD_154 | 1/a/1129:1132, 1/a/1142:1143 | Minor groove platform | homologous IL_5J7L_052 IL_15052.4 | |
| IL_3JCD_155 | 1/a/1158:1161, 1/a/1175:1181 | No text annotation | homologous IL_4LFB_050 IL_42032.1 | |
| IL_3JCD_156 | 1/a/1247:1253, 1/a/1284:1290 | No text annotation | homologous IL_5J7L_054 IL_09129.2 | |
| IL_3JCD_157 | 1/a/1255:1258, 1/a/1277:1282 | 180 degree turn | homologous IL_5J7L_055 IL_11344.2 | |
| IL_3JCD_158 | 1/a/1259:1263, 1/a/1272:1276 | Triple sheared | homologous IL_5J7L_056 IL_17948.2 | |
| IL_3JCD_159 | 1/a/1303:1309, 1/a/1328:1334 | No text annotation | ||
| IL_3JCD_160 | 1/a/1399:1401, 1/a/1501:1504 | No text annotation | homologous IL_5J7L_058 IL_61438.4 | |
| IL_3JCD_161 | 1/a/1401:1404, 1/a/1497:1501 | No text annotation | geometric IL_4V88_464 NA | |
| IL_3JCD_162 | 1/a/1405:1407, 1/a/1494:1496 | Isolated non-canonical cWW pair | geometric IL_4V9F_017 IL_87907.2 | |
| IL_3JCD_163 | 1/a/1407:1409, 1/a/1491:1494 | Not an internal loop | geometric IL_5VCI_005 NA | |
| IL_3JCD_164 | 1/a/1412:1414, 1/a/1486:1488 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 IL_87907.2 | |
| IL_3JCD_165 | 1/a/1416:1419, 1/a/1481:1484 | Double sheared | homologous IL_5J7L_062 IL_09705.15 | |
| IL_3JCD_166 | 1/a/1430:1435, 1/a/1466:1470 | Triple sheared related | homologous IL_5J7L_063 IL_80231.1 | |
| IL_3JCD_167 | 1/a/1440:1442, 1/a/1460:1461 | Single bulged A | homologous IL_5J7L_064 IL_31462.6 | |
| IL_3JCD_168 | 1/a/1445:1448, 1/a/1455:1457 | No text annotation | homologous IL_5J7L_065 IL_31531.3 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_3JCD_169 | Isolated non-canonical cWW pair | ||
| IL_3JCD_007 | No text annotation | ||
| IL_3JCD_024 | No text annotation | ||
| IL_3JCD_027 | C-loop with extra cWW pair | ||
| IL_3JCD_028 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_173 | No text annotation | ||
| IL_3JCD_038 | No text annotation | ||
| IL_3JCD_041 | No text annotation | ||
| IL_3JCD_051 | No text annotation | ||
| IL_3JCD_055 | No text annotation | ||
| IL_3JCD_175 | No text annotation | ||
| IL_3JCD_064 | Triple sheared with non-canonical cWW | ||
| IL_3JCD_073 | No text annotation | ||
| IL_3JCD_179 | No text annotation | ||
| IL_3JCD_093 | No text annotation | ||
| IL_3JCD_180 | No text annotation | ||
| IL_3JCD_098 | No text annotation | ||
| IL_3JCD_182 | No text annotation | ||
| IL_3JCD_183 | No text annotation | ||
| IL_3JCD_117 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_184 | No text annotation | ||
| IL_3JCD_123 | No text annotation | ||
| IL_3JCD_124 | No text annotation | ||
| IL_3JCD_127 | No text annotation | ||
| IL_3JCD_188 | tSH-tHW-tHH-tHS | ||
| IL_3JCD_137 | No text annotation | ||
| IL_3JCD_189 | No text annotation | ||
| IL_3JCD_190 | No text annotation | ||
| IL_3JCD_144 | 9x7 Sarcin-Ricin with inserted C; G-bulge | ||
| IL_3JCD_149 | No text annotation | ||
| IL_3JCD_152 | No text annotation | ||
| IL_3JCD_194 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_195 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_3JCD_001 | 1/A/30:31, 1/A/474:481, 1/A/509:510 | No text annotation | homologous J3_7RQB_001 NA | |
| J3_3JCD_027 | 1/A/30:31, 1/A/474:484, 1/A/496:510 | No text annotation | homologous J3_5J7L_066 J3_92134.2 | |
| J3_3JCD_028 | 1/A/32:35, 1/A/445:461, 1/A/468:473 | No text annotation | homologous J3_5J7L_067 J3_30040.2 | |
| J3_3JCD_045 | 1/A/56:57, 1/A/70:76, 1/A/110:114 | No text annotation | homologous J3_5J7L_037 J3_35667.2 | |
| J3_3JCD_046 | 1/A/683:689, 1/A/773:775, 1/A/791:794 | No text annotation | homologous J3_5J7L_038 J3_64189.2 | |
| J3_3JCD_004 | 1/A/698:700, 1/A/732:736, 1/A/760:763 | No text annotation | homologous J3_7RQB_005 NA | |
| J3_3JCD_005 | 1/A/1055:1057, 1/A/1081:1087, 1/A/1102:1104 | No text annotation | geometric J3_5D8H_001 J3_28621.5 | |
| J3_3JCD_047 | 1/A/1055:1057, 1/A/1081:1090, 1/A/1101:1104 | No text annotation | ||
| J3_3JCD_006 | 1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642 | No text annotation | homologous J3_5J7L_041 J3_32852.6 | |
| J3_3JCD_007 | 1/A/1306:1309, 1/A/1605:1611, 1/A/1620:1622 | No text annotation | homologous J3_7A0S_007 J3_71677.1 | |
| J3_3JCD_048 | 1/A/1344:1349, 1/A/1382:1385, 1/A/1402:1403 | No text annotation | homologous J3_5J7L_043 J3_92705.1 | |
| J3_3JCD_032 | 1/A/1424:1430, 1/A/1563:1565, 1/A/1568:1574 | No text annotation | ||
| J3_3JCD_009 | 1/A/2091:2093, 1/A/2196:2200, 1/A/2223:2228 | Kink-turn in J3 | homologous J3_5J7L_044 J3_89368.5 | |
| J3_3JCD_010 | 1/A/2282:2285, 1/A/2383:2395, 1/A/2421:2427 | No text annotation | homologous J3_4WF9_019 J3_39320.1 | |
| J3_3JCD_011 | 1/A/2295:2299, 1/A/2317:2323, 1/A/2332:2337 | No text annotation | homologous J3_5J7L_071 J3_44961.1 | |
| J3_3JCD_012 | 1/A/2517:2520, 1/A/2545:2547, 1/A/2561:2567 | No text annotation | homologous J3_5J7L_046 J3_32601.5 | |
| J3_3JCD_013 | 1/A/2789:2791, 1/A/2805:2806, 1/A/2892:2894 | No text annotation | homologous J3_5J7L_047 J3_30104.1 | |
| J3_3JCD_014 | 1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888 | No text annotation | homologous J3_5J7L_048 J3_64069.1 | |
| J3_3JCD_015 | 1/B/10:16, 1/B/68:70, 1/B/106:110 | No text annotation | homologous J3_5J7L_049 J3_89095.1 | |
| J3_3JCD_049 | 1/a/46:47, 1/a/361:367, 1/a/393:395 | No text annotation | geometric J3_5J7L_001 J3_67856.4 | |
| J3_3JCD_050 | 1/a/46:52, 1/a/359:367, 1/a/393:395 | No text annotation | homologous J3_4LFB_014 J3_46317.4 | |
| J3_3JCD_051 | 1/a/586:589, 1/a/650:654, 1/a/754:755 | No text annotation | geometric J3_1G1X_003 J3_94652.1 | |
| J3_3JCD_052 | 1/a/586:589, 1/a/650:655, 1/a/751:755 | No text annotation | geometric J3_1G1X_006 J3_85054.4 | |
| J3_3JCD_053 | 1/a/672:677, 1/a/713:725, 1/a/732:734 | No text annotation | ||
| J3_3JCD_018 | 1/a/826:829, 1/a/857:861, 1/a/868:874 | No text annotation | homologous J3_5J7L_004 J3_85054.4 | |
| J3_3JCD_038 | 1/a/936:939, 1/a/1344:1350, 1/a/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_25303.4 | |
| J3_3JCD_039 | 1/a/941:946, 1/a/1235:1237, 1/a/1337:1342 | No text annotation | ||
| J3_3JCD_020 | 1/a/943:946, 1/a/1235:1237, 1/a/1337:1340 | No text annotation | geometric J3_8C3A_039 NA | |
| J3_3JCD_040 | 1/a/955:962, 1/a/973:984, 1/a/1221:1225 | No text annotation | homologous J3_4LFB_004 J3_83516.4 | |
| J3_3JCD_022 | 1/a/990:993, 1/a/1045:1047, 1/a/1210:1215 | No text annotation | geometric J3_4LFB_005 J3_82572.1 | |
| J3_3JCD_041 | 1/a/990:997, 1/a/1044:1047, 1/a/1210:1215 | No text annotation | homologous J3_4LFB_016 J3_76475.2 | |
| J3_3JCD_023 | 1/a/1000:1006, 1/a/1023:1027, 1/a/1034:1040 | No text annotation | ||
| J3_3JCD_043 | 1/a/1060:1068, 1/a/1107:1113, 1/a/1187:1197 | No text annotation | ||
| J3_3JCD_054 | 1/a/1073:1074, 1/a/1083:1087, 1/a/1098:1102 | No text annotation | homologous J3_5J7L_009 J3_76043.3 | |
| J3_3JCD_055 | 1/a/1116:1118, 1/a/1155:1158, 1/a/1181:1184 | No text annotation | geometric J3_4LFB_008 J3_82365.4 | |
| J3_3JCD_056 | 1/a/1116:1118, 1/a/1155:1161, 1/a/1175:1184 | No text annotation | homologous J3_4LFB_018 J3_17791.2 | |
| J3_3JCD_026 | 1/a/1237:1241, 1/a/1296:1303, 1/a/1334:1337 | No text annotation | homologous J3_4LFB_009 J3_37047.6 | |
| J4_3JCD_001 | 1/8/7:10, 1/8/25:27, 1/8/43:49, 1/8/65:66 | tRNA junction | homologous J4_3TUP_001 J4_70449.28 | |
| J4_3JCD_016 | 1/9/7:10, 1/9/25:28, 1/9/42:51, 1/9/63:66 | No text annotation | ||
| J4_3JCD_003 | 1/A/268:269, 1/A/370:375, 1/A/399:406, 1/A/421:424 | No text annotation | homologous J4_5J7L_018 J4_45801.6 | |
| J4_3JCD_004 | 1/A/297:301, 1/A/316:319, 1/A/323:325, 1/A/337:341 | No text annotation | homologous J4_5J7L_019 J4_71729.5 | |
| J4_3JCD_005 | 1/A/601:604, 1/A/624:628, 1/A/635:638, 1/A/650:656 | No text annotation | homologous J4_5J7L_020 J4_60168.1 | |
| J4_3JCD_006 | 1/A/1270:1276, 1/A/1294:1295, 1/A/1645:1648, 1/A/2009:2010 | No text annotation | homologous J4_5J7L_021 J4_64571.5 | |
| J4_3JCD_017 | 1/A/1310:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1604 | No text annotation | homologous J4_5J7L_022 J4_69051.6 | |
| J4_3JCD_018 | 1/A/1313:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1603 | No text annotation | homologous J4_5J7L_023 J4_10313.5 | |
| J4_3JCD_019 | 1/A/1444:1445, 1/A/1466:1467, 1/A/1525:1526, 1/A/1546:1547 | No text annotation | homologous J4_5J7L_024 J4_24280.2 | |
| J4_3JCD_008 | 1/A/1444:1446, 1/A/1465:1467, 1/A/1525:1526, 1/A/1546:1547 | No text annotation | ||
| J4_3JCD_009 | 1/A/1772:1776, 1/A/1788:1792, 1/A/1827:1830, 1/A/1975:1979 | No text annotation | homologous J4_5J7L_025 J4_61477.5 | |
| J4_3JCD_010 | 1/A/1833:1835, 1/A/1905:1906, 1/A/1924:1933, 1/A/1967:1972 | No text annotation | homologous J4_9DFE_008 J4_93343.1 | |
| J4_3JCD_020 | 1/A/2285:2289, 1/A/2343:2347, 1/A/2370:2372, 1/A/2381:2383 | No text annotation | homologous J4_5J7L_027 J4_04930.6 | |
| J4_3JCD_012 | 1/A/2643:2646, 1/A/2674:2676, 1/A/2731:2735, 1/A/2769:2771 | No text annotation | homologous J4_5J7L_028 J4_77044.4 | |
| J4_3JCD_021 | 1/a/115:122, 1/a/239:240, 1/a/286:289, 1/a/311:312 | No text annotation | homologous J4_5J7L_001 J4_35578.3 | |
| J4_3JCD_014 | 1/a/142:144, 1/a/178:184, 1/a/193:198, 1/a/219:221 | No text annotation | homologous J4_5J7L_002 J4_01665.1 | |
| J4_3JCD_022 | 1/a/575:577, 1/a/764:769, 1/a/810:821, 1/a/879:880 | No text annotation | homologous J4_5J7L_003 J4_61885.6 | |
| J5_3JCD_009 | 1/A/47:54, 1/A/116:121, 1/A/130:131, 1/A/148:150, 1/A/176:178 | No text annotation | homologous J5_5J7L_013 J5_01737.2 | |
| J5_3JCD_002 | 1/A/531:533, 1/A/560:564, 1/A/577:579, 1/A/1261:1262, 1/A/2017:2018 | No text annotation | homologous J5_5J7L_014 J5_43153.5 | |
| J5_3JCD_003 | 1/A/584:589, 1/A/668:671, 1/A/809:812, 1/A/1195:1196, 1/A/1250:1256 | No text annotation | homologous J5_5J7L_015 J5_74302.5 | |
| J5_3JCD_004 | 1/A/1310:1314, 1/A/1338:1349, 1/A/1382:1385, 1/A/1402:1407, 1/A/1595:1604 | No text annotation | ||
| J5_3JCD_005 | 1/A/1674:1683, 1/A/1705:1707, 1/A/1751:1752, 1/A/1756:1764, 1/A/1988:1990 | No text annotation | ||
| J5_3JCD_010 | 1/A/2057:2064, 1/A/2446:2453, 1/A/2500:2507, 1/A/2582:2588, 1/A/2606:2611 | No text annotation | ||
| J5_3JCD_011 | 1/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 J5_67416.1 | |
| J5_3JCD_008 | 1/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_59910.6 | |
| J6_3JCD_003 | 1/A/43:46, 1/A/179:183, 1/A/214:224, 1/A/231:235, 1/A/262:266, 1/A/426:436 | No text annotation | ||
| J6_3JCD_004 | 1/A/2074:2077, 1/A/2243:2246, 1/A/2258:2259, 1/A/2281:2284, 1/A/2384:2395, 1/A/2421:2435 | No text annotation | ||
| J7_3JCD_001 | 1/A/8:15, 1/A/525:531, 1/A/2018:2023, 1/A/2040:2043, 1/A/2625:2630, 1/A/2788:2789, 1/A/2894:2895 | No text annotation | ||
| J7_3JCD_002 | 1/A/817:822, 1/A/835:837, 1/A/942:946, 1/A/971:976, 1/A/987:991, 1/A/1163:1164, 1/A/1185:1190 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_3JCD_002 | No text annotation | ||
| J3_3JCD_003 | No text annotation | ||
| J3_3JCD_029 | No text annotation | ||
| J3_3JCD_030 | No text annotation | ||
| J3_3JCD_031 | No text annotation | ||
| J3_3JCD_008 | No text annotation | ||
| J3_3JCD_016 | No text annotation | ||
| J3_3JCD_033 | No text annotation | ||
| J3_3JCD_034 | No text annotation | ||
| J3_3JCD_017 | No text annotation | ||
| J3_3JCD_035 | No text annotation | ||
| J3_3JCD_036 | No text annotation | ||
| J3_3JCD_037 | No text annotation | ||
| J3_3JCD_019 | No text annotation | ||
| J3_3JCD_021 | No text annotation | ||
| J3_3JCD_042 | No text annotation | ||
| J3_3JCD_024 | No text annotation | ||
| J3_3JCD_025 | No text annotation | ||
| J3_3JCD_044 | No text annotation | ||
| J4_3JCD_002 | No text annotation | ||
| J4_3JCD_007 | No text annotation | ||
| J4_3JCD_011 | No text annotation | ||
| J4_3JCD_013 | No text annotation | ||
| J4_3JCD_015 | No text annotation | ||
| J5_3JCD_001 | No text annotation | ||
| J5_3JCD_006 | No text annotation | ||
| J5_3JCD_007 | No text annotation | ||
| J6_3JCD_001 | No text annotation | ||
| J6_3JCD_002 | No text annotation |
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