7SYN Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7SYN_001 | 1/2/7:17 | No text annotation Not in a motif group | geometric HL_4V88_186 HL_89881.2 | |
| HL_7SYN_002 | 1/2/69:80 | No text annotation Not in a motif group | geometric HL_361D_002 HL_90617.2 | |
| HL_7SYN_003 | 1/2/155:163 | No text annotation Not in a motif group | ||
| HL_7SYN_004 | 1/2/196:203 | No text annotation Not in a motif group | ||
| HL_7SYN_005 | 1/2/288:295 | No text annotation Not in a motif group | geometric HL_5NFV_001 HL_76539.2 | |
| HL_7SYN_007 | 1/2/377:387 | No text annotation Not in a motif group | ||
| HL_7SYN_008 | 1/2/416:421 | No text annotation Not in a motif group | geometric HL_4V88_194 HL_50142.2 | |
| HL_7SYN_009 | 1/2/441:452 | No text annotation Not in a motif group | geometric HL_4V88_195 HL_84288.1 | |
| HL_7SYN_010 | 1/2/462:467 | UNCG Not in a motif group | geometric HL_4LFB_009 HL_03562.2 | |
| HL_7SYN_011 | 1/2/498:504 | No text annotation Not in a motif group | geometric HL_5NFV_001 HL_76539.2 | |
| HL_7SYN_012 | 1/2/539:544 | Other HL Not in a motif group | geometric HL_1P6V_001 HL_03562.2 | |
| HL_7SYN_013 | 1/2/569:581 | No text annotation Not in a motif group | geometric HL_4V88_199 HL_06285.2 | |
| HL_7SYN_014 | 1/2/618:623 | Other HL Not in a motif group | geometric HL_4V88_200 HL_53845.1 | |
| HL_7SYN_016 | 1/2/820:828 | No text annotation Not in a motif group | geometric HL_4V88_203 HL_46766.2 | |
| HL_7SYN_018 | 1/2/884:902 | No text annotation Not in a motif group | ||
| HL_7SYN_019 | 1/2/957:966 | No text annotation Not in a motif group | geometric HL_4V88_206 HL_12326.1 | |
| HL_7SYN_020 | 1/2/994:999 | Other HL Not in a motif group | geometric HL_4V88_207 HL_87030.2 | |
| HL_7SYN_021 | 1/2/1054:1064 | No text annotation Not in a motif group | geometric HL_4V88_208 HL_12326.1 | |
| HL_7SYN_022 | 1/2/1113:1120 | No text annotation Not in a motif group | ||
| HL_7SYN_023 | 1/2/1141:1146 | Other HL Not in a motif group | geometric HL_4V88_210 HL_42097.1 | |
| HL_7SYN_024 | 1/2/1178:1183 | GNRA Not in a motif group | geometric HL_5U3G_002 HL_42097.1 | |
| HL_7SYN_025 | 1/2/1245:1254 | No text annotation Not in a motif group | geometric HL_4V88_212 HL_73530.2 | |
| HL_7SYN_026 | 1/2/1295:1304 | No text annotation Not in a motif group | ||
| HL_7SYN_027 | 1/2/1366:1373 | No text annotation Not in a motif group | geometric HL_5TBW_024 HL_71554.2 | |
| HL_7SYN_029 | 1/2/1460:1466 | Other HL Not in a motif group | geometric HL_2CZJ_007 HL_53845.1 | |
| HL_7SYN_030 | 1/2/1565:1570 | GNRA Not in a motif group | geometric HL_5FQ5_001 HL_42097.1 | |
| HL_7SYN_031 | 1/2/1614:1625 | No text annotation Not in a motif group | geometric HL_4V88_219 HL_22554.1 | |
| HL_7SYN_032 | 1/2/1658:1666 | No text annotation Not in a motif group | geometric HL_4V88_220 HL_60812.1 | |
| HL_7SYN_034 | 1/2/1846:1853 | No text annotation Not in a motif group | geometric HL_5NFV_001 HL_76539.2 | |
| HL_7SYN_035 | 1/z/161:166 | No text annotation Not in a motif group | ||
| HL_7SYN_037 | 1/z/232:235 | No text annotation Not in a motif group | ||
| HL_7SYN_038 | 1/z/261:272 | No text annotation Not in a motif group | ||
| HL_7SYN_039 | 1/z/280:283 | No text annotation Not in a motif group | ||
| HL_7SYN_040 | 1/z/294:299 | No text annotation Not in a motif group | ||
| HL_7SYN_041 | 1/z/304:313 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7SYN_006 | No text annotation | ||
| HL_7SYN_015 | No text annotation | ||
| HL_7SYN_017 | No text annotation | ||
| HL_7SYN_028 | No text annotation | ||
| HL_7SYN_033 | No text annotation | ||
| HL_7SYN_036 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7SYN_001 | 1/2/23:25, 1/2/649:651 | No text annotation Not in a motif group | geometric IL_4M4O_001 IL_95997.1 | |
| IL_7SYN_002 | 1/2/34:36, 1/2/519:521 | CA cWW Not in a motif group | geometric IL_5ED2_004 IL_95997.1 | |
| IL_7SYN_003 | 1/2/37:40, 1/2/514:518 | Double sheared Not in a motif group | geometric IL_4WF9_016 IL_09705.9 | |
| IL_7SYN_004 | 1/2/41:47, 1/2/479:481 | No text annotation Not in a motif group | geometric IL_4V88_387 IL_33912.1 | |
| IL_7SYN_005 | 1/2/49:51, 1/2/476:477 | Minor groove platform Not in a motif group | geometric IL_4V88_388 IL_93353.1 | |
| IL_7SYN_006 | 1/2/57:62, 1/2/86:88 | No text annotation Not in a motif group | geometric IL_4V88_389 IL_95004.1 | |
| IL_7SYN_007 | 1/2/63:68, 1/2/81:85 | No text annotation Not in a motif group | geometric IL_4V88_390 IL_77691.1 | |
| IL_7SYN_008 | 1/2/108:110, 1/2/351:353 | No text annotation Not in a motif group | geometric IL_1ZX7_006 IL_95997.1 | |
| IL_7SYN_009 | 1/2/110:112, 1/2/349:351 | No text annotation Not in a motif group | geometric IL_4WF9_042 IL_95997.1 | |
| IL_7SYN_010 | 1/2/112:115, 1/2/348:349 | Multiple bulged bases Not in a motif group | geometric IL_5WLH_001 IL_44546.1 | |
| IL_7SYN_011 | 1/2/116:121, 1/2/343:347 | No text annotation Not in a motif group | geometric IL_4V88_393 IL_64181.2 | |
| IL_7SYN_012 | 1/2/123:124, 1/2/339:341 | Minor groove platform Not in a motif group | geometric IL_4V88_412 IL_93353.1 | |
| IL_7SYN_014 | 1/2/145:151, 1/2/167:174 | tWH-tWH-tHW-tHW Not in a motif group | geometric IL_4V88_394 IL_80604.2 | |
| IL_7SYN_015 | 1/2/152:155, 1/2/163:166 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6CZR_168 IL_67743.1 | |
| IL_7SYN_016 | 1/2/188:192, 1/2/207:211 | Triple sheared Not in a motif group | geometric IL_5J7L_274 IL_56467.8 | |
| IL_7SYN_017 | 1/2/216:219, 1/2/302:309 | No text annotation Not in a motif group | ||
| IL_7SYN_019 | 1/2/312:314, 1/2/336:337 | Single bulged A Not in a motif group | geometric IL_4V88_399 IL_37497.2 | |
| IL_7SYN_020 | 1/2/316:319, 1/2/332:334 | No text annotation Not in a motif group | ||
| IL_7SYN_021 | 1/2/359:364, 1/2/396:403 | Kink-turn with non-sequential stacking Not in a motif group | geometric IL_5J7L_014 IL_45067.2 | |
| IL_7SYN_022 | 1/2/366:371, 1/2/393:394 | No text annotation Not in a motif group | geometric IL_5Y58_001 IL_48100.2 | |
| IL_7SYN_023 | 1/2/411:413, 1/2/424:429 | No text annotation Not in a motif group | geometric IL_4V88_404 IL_11347.1 | |
| IL_7SYN_024 | 1/2/436:439, 1/2/454:457 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5EW4_002 IL_30621.2 | |
| IL_7SYN_025 | 1/2/459:461, 1/2/468:470 | Isolated near basepair Not in a motif group | geometric IL_3NJ7_004 IL_52767.2 | |
| IL_7SYN_026 | 1/2/487:489, 1/2/511:512 | Single bulged U Not in a motif group | geometric IL_3D2V_001 IL_83039.13 | |
| IL_7SYN_027 | 1/2/491:495, 1/2/508:509 | C-loop Not in a motif group | geometric IL_5J7L_018 IL_75255.1 | |
| IL_7SYN_028 | 1/2/495:496, 1/2/506:508 | Single bulged G Not in a motif group | geometric IL_5J7L_019 IL_00225.2 | |
| IL_7SYN_029 | 1/2/529:532, 1/2/552:556 | No text annotation Not in a motif group | ||
| IL_7SYN_030 | 1/2/534:537, 1/2/546:550 | No text annotation Not in a motif group | ||
| IL_7SYN_031 | 1/2/563:565, 1/2/585:592 | No text annotation Not in a motif group | homologous IL_8C3A_420 IL_55023.1 | |
| IL_7SYN_032 | 1/2/566:569, 1/2/581:584 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_402D_001 IL_30621.2 | |
| IL_7SYN_033 | 1/2/599:608, 1/2/635:637 | No text annotation Not in a motif group | ||
| IL_7SYN_034 | 1/2/611:617, 1/2/624:632 | No text annotation Not in a motif group | geometric IL_4V88_415 IL_55871.1 | |
| IL_7SYN_035 | 1/2/663:665, 1/2/1162:1164 | No text annotation Not in a motif group | geometric IL_1Y27_001 IL_51629.2 | |
| IL_7SYN_036 | 1/2/665:671, 1/2/1161:1162 | No text annotation Not in a motif group | geometric IL_4LFB_022 IL_69996.1 | |
| IL_7SYN_037 | 1/2/673:675, 1/2/1030:1032 | No text annotation Not in a motif group | geometric IL_4YHW_001 IL_95997.1 | |
| IL_7SYN_038 | 1/2/676:680, 1/2/1025:1029 | tSH-tHW-tHS Not in a motif group | geometric IL_4V88_418 IL_17136.1 | |
| IL_7SYN_039 | 1/2/692:695, 1/2/731:734 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4EYA_008 IL_30621.2 | |
| IL_7SYN_041 | 1/2/750:754, 1/2/790:793 | No text annotation Not in a motif group | ||
| IL_7SYN_042 | 1/2/802:805, 1/2/858:863 | No text annotation Not in a motif group | ||
| IL_7SYN_043 | 1/2/805:807, 1/2/856:858 | No text annotation Not in a motif group | geometric IL_4KNQ_003 IL_95997.1 | |
| IL_7SYN_044 | 1/2/807:815, 1/2/849:856 | No text annotation Not in a motif group | geometric IL_4V88_425 IL_69091.1 | |
| IL_7SYN_045 | 1/2/874:876, 1/2/910:912 | No text annotation Not in a motif group | geometric IL_5MWI_007 IL_95997.1 | |
| IL_7SYN_046 | 1/2/876:879, 1/2/907:910 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_438 IL_30621.2 | |
| IL_7SYN_047 | 1/2/922:923, 1/2/1019:1022 | Major groove platform; stack outside cWW Not in a motif group | geometric IL_6N5P_003 IL_50694.2 | |
| IL_7SYN_048 | 1/2/924:927, 1/2/1014:1018 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_429 IL_30621.2 | |
| IL_7SYN_049 | 1/2/927:931, 1/2/1010:1014 | No text annotation Not in a motif group | geometric IL_5TBW_121 IL_05145.2 | |
| IL_7SYN_050 | 1/2/931:935, 1/2/1007:1010 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_431 IL_30621.2 | |
| IL_7SYN_051 | 1/2/942:945, 1/2/981:984 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_432 IL_30621.2 | |
| IL_7SYN_052 | 1/2/952:956, 1/2/967:974 | Kink-turn Not in a motif group | geometric IL_4V88_434 IL_45067.2 | |
| IL_7SYN_053 | 1/2/1042:1047, 1/2/1071:1073 | Other IL Not in a motif group | geometric IL_4V88_435 IL_22046.1 | |
| IL_7SYN_054 | 1/2/1047:1051, 1/2/1067:1071 | tSH-tHW-tHS Not in a motif group | geometric IL_6CZR_145 IL_17136.1 | |
| IL_7SYN_055 | 1/2/1091:1093, 1/2/1152:1158 | No text annotation Not in a motif group | geometric IL_4V88_437 IL_19557.3 | |
| IL_7SYN_056 | 1/2/1098:1103, 1/2/1129:1134 | No text annotation Not in a motif group | ||
| IL_7SYN_057 | 1/2/1108:1110, 1/2/1123:1124 | Minor groove platform Not in a motif group | geometric IL_4V88_412 IL_93353.1 | |
| IL_7SYN_058 | 1/2/1168:1175, 1/2/1186:1191 | 8x6 Sarcin-Ricin with inserted Y; G-bulge Not in a motif group | geometric IL_4LFB_034 IL_24606.2 | |
| IL_7SYN_059 | 1/2/1214:1217, 1/2/1681:1685 | C-loop Not in a motif group | geometric IL_4V88_443 IL_63596.6 | |
| IL_7SYN_060 | 1/2/1230:1233, 1/2/1525:1528 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5EW4_002 IL_30621.2 | |
| IL_7SYN_061 | 1/2/1235:1236, 1/2/1521:1523 | Minor groove platform Not in a motif group | geometric IL_7A0S_028 IL_42622.2 | |
| IL_7SYN_062 | 1/2/1268:1273, 1/2/1510:1514 | No text annotation Not in a motif group | ||
| IL_7SYN_063 | 1/2/1281:1287, 1/2/1314:1316 | No text annotation Not in a motif group | ||
| IL_7SYN_064 | 1/2/1287:1290, 1/2/1309:1314 | No text annotation Not in a motif group | ||
| IL_7SYN_065 | 1/2/1291:1294, 1/2/1305:1308 | No text annotation Not in a motif group | ||
| IL_7SYN_066 | 1/2/1325:1327, 1/2/1502:1503 | Single bulged U Not in a motif group | geometric IL_3MEI_001 IL_83039.13 | |
| IL_7SYN_067 | 1/2/1328:1335, 1/2/1492:1501 | No text annotation Not in a motif group | ||
| IL_7SYN_068 | 1/2/1337:1338, 1/2/1488:1490 | Single bulged A Not in a motif group | geometric IL_4V88_452 IL_37497.2 | |
| IL_7SYN_069 | 1/2/1347:1349, 1/2/1380:1382 | Isolated cWH basepair Not in a motif group | geometric IL_4WF9_045 IL_51629.2 | |
| IL_7SYN_070 | 1/2/1349:1363, 1/2/1375:1380 | No text annotation Not in a motif group | ||
| IL_7SYN_071 | 1/2/1363:1365, 1/2/1374:1375 | Minor groove platform Not in a motif group | geometric IL_5ML7_009 IL_42622.2 | |
| IL_7SYN_072 | 1/2/1395:1399, 1/2/1447:1450 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_1L9A_005 IL_30621.2 | |
| IL_7SYN_073 | 1/2/1402:1405, 1/2/1441:1444 | Minor groove platform Not in a motif group | geometric IL_4V88_456 IL_76458.1 | |
| IL_7SYN_074 | 1/2/1412:1413, 1/2/1427:1429 | Single bulged G Not in a motif group | geometric IL_5J7L_019 IL_00225.2 | |
| IL_7SYN_075 | 1/2/1537:1539, 1/2/1594:1596 | No text annotation Not in a motif group | geometric IL_4E48_005 IL_95997.1 | |
| IL_7SYN_076 | 1/2/1550:1558, 1/2/1577:1582 | No text annotation Not in a motif group | geometric IL_4LFB_052 IL_84205.1 | |
| IL_7SYN_077 | 1/2/1559:1564, 1/2/1571:1576 | No text annotation Not in a motif group | ||
| IL_7SYN_078 | 1/2/1604:1610, 1/2/1629:1635 | No text annotation Not in a motif group | ||
| IL_7SYN_079 | 1/2/1702:1705, 1/2/1829:1833 | No text annotation Not in a motif group | homologous IL_8C3A_471 IL_99670.1 | |
| IL_7SYN_080 | 1/2/1706:1708, 1/2/1826:1828 | No text annotation Not in a motif group | geometric IL_4V83_235 IL_95997.1 | |
| IL_7SYN_081 | 1/2/1708:1711, 1/2/1822:1826 | No text annotation Not in a motif group | ||
| IL_7SYN_082 | 1/2/1713:1716, 1/2/1817:1820 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6CZR_168 IL_67743.1 | |
| IL_7SYN_083 | 1/2/1717:1720, 1/2/1813:1816 | Double sheared Not in a motif group | geometric IL_7A0S_081 IL_09705.9 | |
| IL_7SYN_084 | 1/2/1720:1723, 1/2/1811:1813 | No text annotation Not in a motif group | ||
| IL_7SYN_085 | 1/2/1727:1731, 1/2/1803:1807 | No text annotation Not in a motif group | geometric IL_5BTM_001 IL_05145.2 | |
| IL_7SYN_086 | 1/2/1733:1736, 1/2/1798:1801 | Double sheared Not in a motif group | geometric IL_4V88_471 IL_09705.9 | |
| IL_7SYN_087 | 1/2/1739:1741, 1/2/1793:1795 | UU cWW water inserted Not in a motif group | geometric IL_4E48_002 IL_95997.1 | |
| IL_7SYN_088 | 1/2/1742:1746, 1/2/1788:1792 | Triple sheared Not in a motif group | geometric IL_7RQB_075 IL_56467.8 | |
| IL_7SYN_089 | 1/2/1750:1751, 1/2/1782:1784 | No text annotation Not in a motif group | ||
| IL_7SYN_090 | 1/2/1751:1753, 1/2/1780:1782 | Single stack bend Not in a motif group | geometric IL_4WF9_089 IL_76488.2 | |
| IL_7SYN_091 | 1/2/1753:1754, 1/2/1778:1780 | No text annotation Not in a motif group | ||
| IL_7SYN_092 | 1/z/135:138, 1/z/286:289 | No text annotation Not in a motif group | ||
| IL_7SYN_093 | 1/z/149:150, 1/z/242:244 | No text annotation Not in a motif group | ||
| IL_7SYN_094 | 1/z/255:261, 1/z/272:277 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7SYN_013 | No text annotation | ||
| IL_7SYN_018 | No text annotation | ||
| IL_7SYN_040 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7SYN_001 | 1/2/40:41, 1/2/481:487, 1/2/512:514 | No text annotation Not in a motif group | ||
| J3_7SYN_002 | 1/2/682:685, 1/2/917:922, 1/2/1022:1023 | No text annotation Not in a motif group | ||
| J3_7SYN_003 | 1/2/816:819, 1/2/829:831, 1/2/843:848 | No text annotation Not in a motif group | homologous J3_8C3A_035 NA | |
| J3_7SYN_004 | 1/2/938:941, 1/2/985:993, 1/2/1000:1004 | No text annotation Not in a motif group | ||
| J3_7SYN_005 | 1/2/1094:1096, 1/2/1136:1140, 1/2/1147:1151 | No text annotation Not in a motif group | ||
| J3_7SYN_006 | 1/2/1218:1221, 1/2/1645:1651, 1/2/1673:1680 | No text annotation Not in a motif group | ||
| J3_7SYN_007 | 1/2/1225:1228, 1/2/1530:1532, 1/2/1638:1641 | No text annotation Not in a motif group | ||
| J3_7SYN_008 | 1/2/1237:1244, 1/2/1255:1266, 1/2/1516:1520 | No text annotation Not in a motif group | ||
| J3_7SYN_009 | 1/2/1273:1277, 1/2/1320:1324, 1/2/1504:1510 | No text annotation Not in a motif group | ||
| J3_7SYN_010 | 1/2/1532:1536, 1/2/1597:1604, 1/2/1635:1638 | No text annotation Not in a motif group | homologous J3_8C3A_044 NA |
Problematic loops
No problematic loops
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