RNA 3D Hub //

4IO9 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4IO9_0011/X/58:67Pseudoknot with intercalation
homologous
HL_7A0S_001
HL_17803.1
HL_4IO9_0021/X/85:95No text annotation
homologous
HL_7A0S_002
HL_76590.1
HL_4IO9_0031/X/121:126No text annotation
homologous
HL_7RQB_003
NA
HL_4IO9_0041/X/133:138No text annotation
geometric
HL_5U3G_001
HL_75660.8
HL_4IO9_0051/X/146:151GNRA
homologous
HL_7A0S_005
HL_34789.4
HL_4IO9_0061/X/171:178No text annotation
homologous
HL_7A0S_006
HL_48677.1
HL_4IO9_0071/X/202:207No text annotation
homologous
HL_7A0S_007
HL_51020.2
HL_4IO9_0081/X/223:229No text annotation
homologous
HL_7RQB_008
NA
HL_4IO9_0091/X/316:323T-loop with 2 stacked bulged bases
homologous
HL_5J7L_142
NA
HL_4IO9_0101/X/330:334No text annotation
homologous
HL_7A0S_011
HL_75660.8
HL_4IO9_0111/X/338:346No text annotation
geometric
HL_2Y9H_003
HL_75660.8
HL_4IO9_0121/X/395:405No text annotation
homologous
HL_7A0S_013
HL_91503.8
HL_4IO9_0131/X/423:430Pseudoknot geometry
homologous
HL_7A0S_014
HL_30680.5
HL_4IO9_0141/X/473:478GNRA
homologous
HL_7RQB_015
NA
HL_4IO9_0151/X/498:503GNRA
homologous
HL_4WF9_016
HL_34789.4
HL_4IO9_0161/X/552:560UNCG variation
geometric
HL_6VMY_004
HL_51020.2
HL_4IO9_0171/X/575:584T-loop with 2 stacked bulged bases
homologous
HL_7A0S_018
HL_33597.3
HL_4IO9_0181/X/622:627No text annotation
homologous
HL_7A0S_019
HL_59381.2
HL_4IO9_0191/X/640:645GNRA
homologous
HL_7RQB_020
NA
HL_4IO9_0201/X/651:658No text annotation
homologous
HL_7A0S_021
HL_81314.1
HL_4IO9_0211/X/725:732No text annotation
geometric
HL_8G9Z_001
HL_75660.8
HL_4IO9_0221/X/757:766No text annotation
homologous
HL_7A0S_022
HL_50204.1
HL_4IO9_0231/X/792:798UNCG variation
homologous
HL_7A0S_023
HL_51020.2
HL_4IO9_0241/X/839:844No text annotation
homologous
HL_7A0S_024
HL_27530.1
HL_4IO9_0261/X/966:973GNRA
homologous
HL_7RQB_027
NA
HL_4IO9_0271/X/989:996No text annotation
homologous
HL_7A0S_027
HL_47171.1
HL_4IO9_0281/X/1075:1085No text annotation
homologous
HL_6PRV_001
HL_20174.1
HL_4IO9_0291/X/1185:1189Externally structured
geometric
HL_5TBW_022
NA
HL_4IO9_0301/X/1235:1240GNRA
homologous
HL_7A0S_031
HL_34789.4
HL_4IO9_0311/X/1294:1302No text annotation
homologous
HL_7RQB_033
NA
HL_4IO9_0321/X/1337:1343No text annotation
homologous
HL_7RQB_034
NA
HL_4IO9_0331/X/1376:1381GNRA variation
homologous
HL_7A0S_034
HL_34789.4
HL_4IO9_0341/X/1402:1411No text annotation
homologous
HL_7A0S_035
HL_77449.1
HL_4IO9_0351/X/1466:1476Pseudoknot
homologous
HL_7A0S_036
HL_00824.1
HL_4IO9_0361/X/1508:1514Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_4IO9_0371/X/1549:1554No text annotation
geometric
HL_8C3A_054
NA
HL_4IO9_0381/X/1581:1584Mini UNCG
homologous
HL_5J7L_172
NA
HL_4IO9_0391/X/1628:1635No text annotation
homologous
HL_7RQB_040
NA
HL_4IO9_0401/X/1647:1652No text annotation
homologous
HL_7RQB_041
NA
HL_4IO9_0411/X/1708:1713No text annotation
geometric
HL_7RQB_042
NA
HL_4IO9_0421/X/1731:1735No text annotation
homologous
HL_7A0S_043
NA
HL_4IO9_0431/X/1743:1747No text annotation
homologous
HL_7RQB_044
NA
HL_4IO9_0441/X/1767:1779No text annotation
homologous
HL_7A0S_045
HL_50951.1
HL_4IO9_0451/X/1797:1803GNRA related
homologous
HL_5J7L_179
NA
HL_4IO9_0461/X/1856:1861GNRA
homologous
HL_7A0S_047
HL_34789.4
HL_4IO9_0471/X/1932:1940No text annotation
homologous
HL_7RQB_049
NA
HL_4IO9_0481/X/2010:2019No text annotation
homologous
HL_7A0S_049
HL_78372.1
HL_4IO9_0501/X/2186:2199No text annotation
HL_4IO9_0511/X/2227:2235No text annotation
homologous
HL_7A0S_052
HL_11974.2
HL_4IO9_0521/X/2243:2255No text annotation
homologous
HL_7RQB_054
NA
HL_4IO9_0711/X/2283:2291No text annotation
HL_4IO9_0541/X/2303:2310Pseudoknot geometry
homologous
HL_7A0S_055
HL_52651.2
HL_4IO9_0551/X/2334:2341GNRA with extra cWW
homologous
HL_7A0S_056
HL_87268.2
HL_4IO9_0561/X/2353:2358GNRA
homologous
HL_7A0S_057
HL_34789.4
HL_4IO9_0571/X/2383:2392No text annotation
homologous
HL_7A0S_058
HL_51853.2
HL_4IO9_0581/X/2450:2458No text annotation
homologous
HL_5J7L_193
NA
HL_4IO9_0591/X/2507:2514GNRA variation
homologous
HL_7A0S_060
HL_46665.2
HL_4IO9_0601/X/2530:2536No text annotation
homologous
HL_4WF9_058
HL_48677.1
HL_4IO9_0611/X/2573:2578GNRA
homologous
HL_7A0S_062
HL_34789.4
HL_4IO9_0621/X/2637:2642GNRA
geometric
HL_7A0S_063
HL_34789.4
HL_4IO9_0631/X/2680:2685Ribsomal LSU H95
homologous
HL_5J7L_198
NA
HL_4IO9_0641/X/2725:2739No text annotation
homologous
HL_7RQB_066
NA
HL_4IO9_0651/X/2772:2780No text annotation
geometric
HL_4WF9_011
HL_75660.8
HL_4IO9_0661/X/2794:2802No text annotation
homologous
HL_7A0S_067
HL_37889.1
HL_4IO9_0671/X/2831:2836GNRA
homologous
HL_5J7L_202
NA
HL_4IO9_0721/Y/36:50No text annotation
homologous
HL_5J7L_215
NA
HL_4IO9_0681/Y/40:46No text annotation
geometric
HL_7RQB_070
NA
HL_4IO9_0691/Y/88:93GNRA
homologous
HL_7A0S_070
HL_34789.4

Problematic loops

#loop idProblemSequence
HL_4IO9_025No text annotation
HL_4IO9_049No text annotation
HL_4IO9_053No text annotation
HL_4IO9_070No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4IO9_0011/X/24:30,
1/X/520:526		Triple sheared with non-canonical cWW
homologous
IL_4WF9_001
IL_22311.1
IL_4IO9_0021/X/36:37,
1/X/454:456		Single bulged A
homologous
IL_7RQB_002
NA
IL_4IO9_0041/X/42:43,
1/X/447:449		Minor groove platform
homologous
IL_7RQB_003
NA
IL_4IO9_0051/X/80:84,
1/X/96:103		Kink-turn
homologous
IL_7A0S_004
IL_94910.1
IL_4IO9_0061/X/160:161,
1/X/189:191		Single stack bend
homologous
IL_4WF9_007
IL_15011.3
IL_4IO9_0071/X/165:171,
1/X/178:185		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_250
NA
IL_4IO9_0081/X/215:222,
1/X/230:236		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_007
IL_62167.3
IL_4IO9_0091/X/303:306,
1/X/354:359		No text annotation
homologous
IL_7A0S_008
IL_74852.1
IL_4IO9_0101/X/492:495,
1/X/506:519		No text annotation
homologous
IL_7A0S_009
IL_44923.1
IL_4IO9_0111/X/573:575,
1/X/584:586		Isolated non-canonical cWW pair
geometric
IL_7A0S_011
IL_71625.3
IL_4IO9_0121/X/600:602,
1/X/678:679		Single bulged A
homologous
IL_7A0S_012
IL_14190.2
IL_4IO9_0131/X/616:620,
1/X/629:633		AAA cross-strand stack
homologous
IL_4WF9_019
IL_66798.3
IL_4IO9_0141/X/685:687,
1/X/819:821		Isolated non-canonical cWW pair
geometric
IL_5J7L_259
NA
IL_4IO9_0151/X/687:691,
1/X/812:819		tHW-tHW cross-strand stack
homologous
IL_7A0S_015
IL_73855.1
IL_4IO9_0161/X/710:711,
1/X/776:778		Single bulged A
geometric
IL_7A0S_016
IL_14190.2
IL_4IO9_0171/X/715:716,
1/X/741:743		Single bulged G
homologous
IL_7RQB_020
NA
IL_4IO9_0181/X/716:721,
1/X/736:741		Triple sheared with non-canonical cWW
geometric
IL_7A0S_018
IL_29495.1
IL_4IO9_0191/X/751:754,
1/X/769:771		Major groove platform with extra cWW
geometric
IL_7RQB_022
NA
IL_4IO9_0201/X/754:756,
1/X/767:769		Isolated non-canonical cWW pair
homologous
IL_7A0S_020
IL_01003.4
IL_4IO9_0211/X/788:790,
1/X/800:804		Multiple bulged bases
homologous
IL_7RQB_023
NA
IL_4IO9_0221/X/850:851,
1/X/951:953		Single stack bend
homologous
IL_4WF9_028
IL_15011.3
IL_4IO9_0231/X/857:860,
1/X/944:945		Major groove platform; stack outside cWW
geometric
IL_7A0S_023
IL_74641.2
IL_4IO9_1151/X/857:861,
1/X/942:945		No text annotation
homologous
IL_4WF9_029
IL_01742.1
IL_4IO9_0241/X/860:861,
1/X/942:944		90 degree turn
homologous
IL_7A0S_024
IL_79144.1
IL_4IO9_0251/X/863:864,
1/X/938:940		Single bulged C
homologous
IL_7A0S_025
IL_05642.3
IL_4IO9_0261/X/864:866,
1/X/936:938		Isolated non-canonical cWW pair
geometric
IL_7A0S_026
IL_01003.4
IL_4IO9_1171/X/871:875,
1/X/927:931		5x5 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_7A0S_111
IL_38862.5
IL_4IO9_0281/X/875:876,
1/X/925:927		Minor groove platform
homologous
IL_7A0S_028
IL_34520.3
IL_4IO9_0291/X/877:881,
1/X/921:924		C-loop
homologous
IL_7A0S_029
IL_16301.1
IL_4IO9_1181/X/883:885,
1/X/917:919		Isolated near basepair
homologous
IL_7A0S_030
IL_42997.5
IL_4IO9_0311/X/963:965,
1/X/974:976		Isolated non-canonical cWW pair
homologous
IL_7A0S_031
IL_01003.4
IL_4IO9_0321/X/1005:1007,
1/X/1170:1171		Single bulged C
homologous
IL_7A0S_032
IL_05642.3
IL_4IO9_0331/X/1009:1013,
1/X/1164:1168		UAA/GAN
homologous
IL_5J7L_277
NA
IL_4IO9_0341/X/1015:1022,
1/X/1161:1162		SSU/LSU pseudoknot
geometric
IL_7A0S_034
IL_11411.1
IL_4IO9_0351/X/1022:1024,
1/X/1160:1161		Single bulged U
homologous
IL_7A0S_035
IL_97561.5
IL_4IO9_0361/X/1029:1035,
1/X/1150:1155		Kink-turn related
geometric
IL_4WF9_039
IL_57188.6
IL_4IO9_0371/X/1035:1041,
1/X/1135:1150		No text annotation
geometric
IL_7A0S_037
IL_50715.4
IL_4IO9_0381/X/1042:1045,
1/X/1132:1134		Isolated non-canonical cWW pair
homologous
IL_5J7L_282
NA
IL_4IO9_1231/X/1054:1062,
1/X/1119:1123		Kink-turn
homologous
IL_5J7L_284
NA
IL_4IO9_0401/X/1065:1069,
1/X/1091:1116		No text annotation
IL_4IO9_1191/X/1065:1073,
1/X/1087:1116		No text annotation
IL_4IO9_0421/X/1175:1178,
1/X/1196:1199		Tandem non-canonical cWW pairs
homologous
IL_7A0S_040
IL_71194.2
IL_4IO9_0451/X/1210:1212,
1/X/1260:1263		Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.5
IL_4IO9_0461/X/1218:1220,
1/X/1252:1254		Isolated non-canonical cWW pair
homologous
IL_7A0S_042
IL_01003.4
IL_4IO9_0471/X/1221:1228,
1/X/1247:1251		Kink-turn
homologous
IL_7A0S_043
IL_90775.2
IL_4IO9_0481/X/1232:1234,
1/X/1241:1243		Intercalated cWW
homologous
IL_7A0S_044
IL_53541.1
IL_4IO9_0491/X/1275:1282,
1/X/1994:2000		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_045
IL_62167.3
IL_4IO9_0501/X/1323:1326,
1/X/1619:1620		Major groove platform; stack outside cWW
homologous
IL_7A0S_046
IL_74641.2
IL_4IO9_0511/X/1332:1336,
1/X/1344:1346		C-loop
homologous
IL_7A0S_047
IL_06671.1
IL_4IO9_0521/X/1364:1368,
1/X/1389:1393		UAA/GAN
homologous
IL_7A0S_048
IL_89021.4
IL_4IO9_0531/X/1370:1374,
1/X/1383:1387		tSH-tHW-tHS
homologous
IL_7A0S_049
IL_05821.1
IL_4IO9_0541/X/1426:1430,
1/X/1598:1605		Kink-turn
homologous
IL_7A0S_050
IL_28245.1
IL_4IO9_0551/X/1431:1435,
1/X/1593:1597		UAA/GAN
homologous
IL_7A0S_051
IL_08938.1
IL_4IO9_0561/X/1447:1449,
1/X/1573:1576		No text annotation
homologous
IL_7A0S_052
IL_38565.2
IL_4IO9_0571/X/1451:1454,
1/X/1567:1571		tSH-tHW
homologous
IL_5J7L_297
NA
IL_4IO9_0581/X/1463:1465,
1/X/1477:1478		Single stack bend
homologous
IL_7A0S_054
IL_15011.3
IL_4IO9_0591/X/1488:1490,
1/X/1534:1535		Single bulged C
homologous
IL_7A0S_055
IL_05642.3
IL_4IO9_0601/X/1491:1494,
1/X/1530:1533		Double sheared
geometric
IL_5J7L_333
NA
IL_4IO9_1241/X/1497:1498,
1/X/1522:1527		No text annotation
IL_4IO9_0631/X/1503:1507,
1/X/1515:1517		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_4IO9_0651/X/1668:1673,
1/X/1987:1989		No text annotation
homologous
IL_5J7L_304
NA
IL_4IO9_0661/X/1680:1682,
1/X/1978:1980		Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_4IO9_0671/X/1683:1686,
1/X/1976:1977		Major groove platform; stack outside cWW
homologous
IL_5J7L_306
NA
IL_4IO9_1211/X/1683:1691,
1/X/1973:1977		No text annotation
homologous
IL_7A0S_109
IL_80252.1
IL_4IO9_0681/X/1686:1691,
1/X/1973:1976		Intercalated tWH
geometric
IL_7A0S_062
IL_28217.1
IL_4IO9_0691/X/1703:1708,
1/X/1713:1719		tSH-tSH-tHH-tHS
homologous
IL_7A0S_063
IL_20700.1
IL_4IO9_0701/X/1761:1762,
1/X/1963:1965		Single bulged A
homologous
IL_7A0S_064
IL_14190.2
IL_4IO9_0711/X/1789:1795,
1/X/1805:1813		Kink-turn related
homologous
IL_5J7L_313
NA
IL_4IO9_0721/X/1829:1832,
1/X/1885:1886		Minor groove platform, major groove intercalation
homologous
IL_7A0S_066
IL_55206.1
IL_4IO9_0731/X/1833:1834,
1/X/1881:1884		Major groove intercalation
homologous
IL_5J7L_315
NA
IL_4IO9_0741/X/1838:1841,
1/X/1876:1877		Major groove minor groove platform; mini C-loop
homologous
IL_4WF9_072
IL_73108.2
IL_4IO9_0751/X/1843:1847,
1/X/1870:1874		UAA/GAN with extra stack
homologous
IL_7A0S_069
IL_89021.4
IL_4IO9_0761/X/1848:1852,
1/X/1865:1869		Triple sheared
homologous
IL_7A0S_070
IL_15190.2
IL_4IO9_0771/X/1916:1917,
1/X/1947:1950		Bulged stacked bases
homologous
IL_5J7L_318
NA
IL_4IO9_0781/X/1917:1928,
1/X/1944:1947		No text annotation
geometric
IL_7A0S_072
IL_04332.3
IL_4IO9_0791/X/2033:2035,
1/X/2596:2597		Major groove platform
homologous
IL_7A0S_073
IL_48076.8
IL_4IO9_0801/X/2037:2040,
1/X/2590:2594		No text annotation
homologous
IL_7RQB_079
NA
IL_4IO9_0811/X/2050:2052,
1/X/2421:2422		Single bulged U
homologous
IL_7A0S_075
IL_97561.5
IL_4IO9_0821/X/2053:2054,
1/X/2417:2420		Minor groove platform
homologous
IL_7RQB_081
NA
IL_4IO9_0831/X/2064:2066,
1/X/2215:2218		Isolated tHS basepair with bulges
homologous
IL_4WF9_082
IL_87316.2
IL_4IO9_0841/X/2068:2070,
1/X/2211:2213		Isolated non-canonical cWW pair
homologous
IL_7A0S_078
IL_71625.3
IL_4IO9_0871/X/2276:2278,
1/X/2296:2300		Isolated tHS basepair with bulges
geometric
IL_7A0S_080
IL_14250.1
IL_4IO9_0881/X/2329:2332,
1/X/2343:2346		Double sheared
homologous
IL_7A0S_081
IL_58355.2
IL_4IO9_0891/X/2380:2382,
1/X/2393:2394		Major groove platform
homologous
IL_7RQB_090
NA
IL_4IO9_0901/X/2432:2433,
1/X/2477:2479		Single stack bend
geometric
IL_7A0S_083
IL_15011.3
IL_4IO9_0911/X/2433:2434,
1/X/2475:2477		Major groove platform
homologous
IL_7RQB_092
NA
IL_4IO9_0921/X/2436:2438,
1/X/2472:2473		Major groove platform
geometric
IL_4WF9_091
IL_48076.8
IL_4IO9_0931/X/2438:2440,
1/X/2468:2472		Major groove minor groove platform with extra cWW
homologous
IL_7RQB_094
NA
IL_4IO9_0941/X/2445:2449,
1/X/2459:2463		Double sheared with non-canonical cWW
homologous
IL_7A0S_087
IL_87767.2
IL_4IO9_0951/X/2486:2487,
1/X/2559:2561		Major groove platform
homologous
IL_7A0S_088
IL_46637.2
IL_4IO9_0961/X/2489:2491,
1/X/2553:2557		Isolated non-canonical cWW with bulges
geometric
IL_7RQB_097
NA
IL_4IO9_0971/X/2491:2492,
1/X/2550:2553		Multiple bulged bases
homologous
IL_7RQB_098
NA
IL_4IO9_0981/X/2501:2502,
1/X/2519:2522		Major groove platform with intercalation
homologous
IL_7A0S_091
IL_94991.2
IL_4IO9_0991/X/2570:2571,
1/X/2580:2582		Single bulged A
homologous
IL_4WF9_098
IL_14190.2
IL_4IO9_1001/X/2615:2619,
1/X/2754:2762		tSH-tHS-tHW
homologous
IL_7A0S_093
IL_04638.4
IL_4IO9_1011/X/2631:2637,
1/X/2642:2647		Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_7A0S_094
IL_16458.6
IL_4IO9_1021/X/2659:2663,
1/X/2705:2707		C-loop
homologous
IL_5J7L_347
NA
IL_4IO9_1031/X/2666:2670,
1/X/2698:2702		UAA/GAN related, with intercalation
homologous
IL_7A0S_096
IL_82016.1
IL_4IO9_1041/X/2674:2675,
1/X/2690:2694		Multiple bulged bases
homologous
IL_7A0S_097
IL_44609.2
IL_4IO9_1051/X/2717:2722,
1/X/2742:2747		UAA/GAN with extra cWW
homologous
IL_7A0S_098
IL_91079.1
IL_4IO9_1061/X/2813:2814,
1/X/2853:2855		Major groove intercalation
homologous
IL_7A0S_099
IL_28408.2
IL_4IO9_1071/X/2818:2820,
1/X/2846:2849		Decoding loop related
homologous
IL_7A0S_100
IL_05502.1
IL_4IO9_1081/X/2822:2827,
1/X/2840:2844		No text annotation
homologous
IL_7A0S_101
IL_48489.1
IL_4IO9_1091/Y/19:21,
1/Y/66:69		Isolated non-canonical cWW with bulges
geometric
IL_5ML7_010
IL_68118.4
IL_4IO9_1101/Y/25:30,
1/Y/58:62		No text annotation
homologous
IL_7A0S_103
IL_18472.5
IL_4IO9_1111/Y/32:34,
1/Y/52:56		No text annotation
homologous
IL_4WF9_114
NA
IL_4IO9_1121/Y/36:40,
1/Y/46:50		Symmetric double minor groove platform
geometric
IL_5J7L_358
NA
IL_4IO9_1131/Y/73:81,
1/Y/100:108		Bacterial 5S Loop E
homologous
IL_7A0S_106
IL_71138.1
IL_4IO9_1141/Y/82:84,
1/Y/97:99		Isolated non-canonical cWW pair
homologous
IL_7A0S_107
IL_71625.3

Problematic loops

#loop idProblemSequence
IL_4IO9_003No text annotation
IL_4IO9_116Isolated non-canonical cWW pair
IL_4IO9_0275x5 Sarcin-Ricin with intercalated A; G-bulge
IL_4IO9_030No text annotation
IL_4IO9_039No text annotation
IL_4IO9_041No text annotation
IL_4IO9_043Isolated non-canonical cWW pair
IL_4IO9_044Isolated non-canonical cWW pair
IL_4IO9_120No text annotation
IL_4IO9_061No text annotation
IL_4IO9_062Isolated non-canonical cWW pair
IL_4IO9_064Isolated non-canonical cWW pair
IL_4IO9_085Isolated non-canonical cWW pair
IL_4IO9_086Isolated non-canonical cWW pair
IL_4IO9_122No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4IO9_0111/X/30:31,
1/X/485:492,
1/X/519:520		No text annotation
geometric
J3_7A0S_001
J3_68715.1
J3_4IO9_0141/X/30:31,
1/X/485:495,
1/X/506:520		No text annotation
homologous
J3_7A0S_015
J3_17917.1
J3_4IO9_0151/X/32:35,
1/X/457:472,
1/X/479:484		No text annotation
homologous
J3_7A0S_016
J3_07616.1
J3_4IO9_0121/X/55:56,
1/X/69:75,
1/X/108:112		No text annotation
homologous
J3_7A0S_002
J3_01004.1
J3_4IO9_0161/X/308:312,
1/X/327:336,
1/X/348:352		No text annotation
homologous
J3_9DFE_006
J3_77124.1
J3_4IO9_0011/X/696:702,
1/X/786:788,
1/X/804:807		No text annotation
homologous
J3_7RQB_004
NA
J3_4IO9_0021/X/711:713,
1/X/745:749,
1/X/773:776		No text annotation
homologous
J3_7A0S_005
J3_69816.1
J3_4IO9_0031/X/1311:1316,
1/X/1641:1643,
1/X/1656:1659		No text annotation
homologous
J3_7A0S_006
J3_32852.7
J3_4IO9_0041/X/1319:1322,
1/X/1621:1627,
1/X/1636:1638		No text annotation
homologous
J3_7A0S_007
J3_47341.1
J3_4IO9_0171/X/1357:1363,
1/X/1394:1398,
1/X/1415:1416		No text annotation
homologous
J3_7A0S_018
J3_94309.1
J3_4IO9_0181/X/1438:1443,
1/X/1580:1581,
1/X/1584:1590		No text annotation
homologous
J3_7A0S_019
J3_34864.3
J3_4IO9_0061/X/2074:2076,
1/X/2179:2183,
1/X/2202:2207		Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_4IO9_0191/X/2261:2263,
1/X/2363:2374,
1/X/2400:2406		No text annotation
homologous
J3_9DFE_015
J3_04772.1
J3_4IO9_0071/X/2274:2276,
1/X/2300:2302,
1/X/2311:2316		No text annotation
homologous
J3_7RQB_011
NA
J3_4IO9_0081/X/2496:2499,
1/X/2524:2526,
1/X/2540:2546		No text annotation
homologous
J3_7RQB_012
NA
J3_4IO9_0091/X/2769:2771,
1/X/2781:2786,
1/X/2864:2868		No text annotation
homologous
J3_7A0S_012
J3_20574.1
J3_4IO9_0131/X/2789:2790,
1/X/2806:2811,
1/X/2857:2861		No text annotation
homologous
J3_7A0S_013
J3_76911.2
J3_4IO9_0201/Y/12:18,
1/Y/70:71,
1/Y/110:113		No text annotation
homologous
J3_7A0S_021
J3_47324.1
J4_4IO9_0011/X/308:312,
1/X/327:330,
1/X/334:336,
1/X/348:352		No text annotation
homologous
J4_7A0S_002
J4_16174.1
J4_4IO9_0021/X/611:614,
1/X/635:639,
1/X/646:650,
1/X/659:669		No text annotation
homologous
J4_4WF9_003
J4_69347.1
J4_4IO9_0031/X/1283:1289,
1/X/1307:1308,
1/X/1662:1665,
1/X/1992:1993		No text annotation
homologous
J4_7A0S_004
J4_64571.6
J4_4IO9_0041/X/1323:1327,
1/X/1351:1356,
1/X/1417:1418,
1/X/1613:1620		No text annotation
homologous
J4_7A0S_005
J4_77353.1
J4_4IO9_0051/X/1326:1327,
1/X/1351:1356,
1/X/1417:1418,
1/X/1613:1619		No text annotation
homologous
J4_7A0S_006
J4_48150.1
J4_4IO9_0061/X/1458:1460,
1/X/1481:1482,
1/X/1541:1545,
1/X/1558:1563		No text annotation
homologous
J4_7A0S_007
J4_91813.1
J4_4IO9_0071/X/1763:1767,
1/X/1779:1783,
1/X/1819:1822,
1/X/1958:1962		No text annotation
homologous
J4_5J7L_025
NA
J4_4IO9_0081/X/2264:2268,
1/X/2322:2326,
1/X/2349:2351,
1/X/2360:2362		No text annotation
homologous
J4_9DFE_009
J4_98139.1
J4_4IO9_0091/X/2622:2625,
1/X/2653:2655,
1/X/2711:2716,
1/X/2748:2751		No text annotation
homologous
J4_7A0S_010
J4_54165.1
J5_4IO9_0011/X/46:53,
1/X/114:119,
1/X/128:129,
1/X/142:143,
1/X/154:155		No text annotation
homologous
J5_7A0S_001
J5_75459.1
J5_4IO9_0021/X/541:543,
1/X/569:573,
1/X/586:588,
1/X/1274:1275,
1/X/2000:2001		No text annotation
homologous
J5_7A0S_003
J5_43153.6
J5_4IO9_0031/X/593:598,
1/X/681:684,
1/X/822:825,
1/X/1209:1210,
1/X/1263:1269		No text annotation
homologous
J5_7A0S_004
J5_74302.6
J5_4IO9_0041/X/1691:1699,
1/X/1723:1724,
1/X/1742:1743,
1/X/1747:1755,
1/X/1971:1973		No text annotation
homologous
J5_9DFE_005
J5_99177.1
J5_4IO9_0071/X/2040:2047,
1/X/2425:2432,
1/X/2479:2485,
1/X/2562:2567,
1/X/2585:2590		No text annotation
J5_4IO9_0061/X/2057:2060,
1/X/2222:2225,
1/X/2237:2238,
1/X/2260:2261,
1/X/2406:2414		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J6_4IO9_0011/X/44:45,
1/X/156:160,
1/X/191:201,
1/X/208:212,
1/X/239:243,
1/X/439:446		No text annotation
J6_4IO9_0021/X/2057:2060,
1/X/2222:2225,
1/X/2237:2238,
1/X/2260:2263,
1/X/2363:2374,
1/X/2400:2414		No text annotation
J7_4IO9_0011/X/8:15,
1/X/535:541,
1/X/2001:2006,
1/X/2023:2026,
1/X/2604:2609,
1/X/2768:2769,
1/X/2868:2869		No text annotation
J7_4IO9_0021/X/830:835,
1/X/848:849,
1/X/954:957,
1/X/982:987,
1/X/998:1002,
1/X/1174:1175,
1/X/1199:1204		No text annotation

Problematic loops

#loop idProblemSequence
J3_4IO9_005No text annotation
J3_4IO9_010No text annotation
J5_4IO9_005No text annotation

Coloring options:
Copyright 2026 BGSU RNA group. Page generated in 0.0584 s