9GY4 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9GY4_001 | 1/5/37:44 | No text annotation | homologous HL_8CRE_001 NA | |
| HL_9GY4_002 | 1/5/68:73 | No text annotation | homologous HL_8CRE_002 NA | |
| HL_9GY4_003 | 1/5/89:95 | No text annotation | homologous HL_8CRE_003 NA | |
| HL_9GY4_004 | 1/5/131:137 | No text annotation | ||
| HL_9GY4_005 | 1/5/204:211 | T-loop with 1 bulged base | homologous HL_8P9A_117 HL_13999.2 | |
| HL_9GY4_006 | 1/5/222:226 | No text annotation | geometric HL_5J7L_143 NA | |
| HL_9GY4_007 | 1/5/230:238 | T-loop with unstacked turn | homologous HL_8P9A_119 HL_27670.3 | |
| HL_9GY4_008 | 1/5/289:298 | T-loop related | homologous HL_8CRE_008 NA | |
| HL_9GY4_009 | 1/5/314:323 | No text annotation | homologous HL_8CRE_009 NA | |
| HL_9GY4_010 | 1/5/368:373 | GNRA | homologous HL_8CRE_010 NA | |
| HL_9GY4_011 | 1/5/393:398 | GNRA | homologous HL_8CRE_011 NA | |
| HL_9GY4_012 | 1/5/1178:1183 | Mini UNCG | geometric HL_4OOG_001 HL_12626.2 | |
| HL_9GY4_013 | 1/5/1317:1326 | T-loop with 2 stacked bulged bases | homologous HL_8CRE_013 NA | |
| HL_9GY4_014 | 1/5/1364:1373 | No text annotation | ||
| HL_9GY4_015 | 1/5/1389:1394 | GNRA | homologous HL_8CRE_015 NA | |
| HL_9GY4_016 | 1/5/1436:1448 | No text annotation | ||
| HL_9GY4_017 | 1/5/1561:1566 | GNRA | homologous HL_8CRE_018 NA | |
| HL_9GY4_018 | 1/5/1593:1602 | No text annotation | homologous HL_8CRE_019 NA | |
| HL_9GY4_019 | 1/5/1627:1635 | No text annotation | homologous HL_8P9A_133 HL_92598.1 | |
| HL_9GY4_020 | 1/5/1675:1680 | No text annotation | homologous HL_8P9A_134 HL_27530.1 | |
| HL_9GY4_022 | 1/5/1816:1823 | T-loop related | homologous HL_8P9A_136 HL_63894.2 | |
| HL_9GY4_023 | 1/5/1864:1870 | GNRA | homologous HL_8P9A_137 HL_34789.2 | |
| HL_9GY4_024 | 1/5/1886:1893 | No text annotation | homologous HL_8CRE_025 NA | |
| HL_9GY4_025 | 1/5/1978:1989 | No text annotation | homologous HL_8CRE_026 NA | |
| HL_9GY4_026 | 1/5/2006:2013 | GNRA wlth tandem sheared | homologous HL_8P9A_140 HL_98423.2 | |
| HL_9GY4_027 | 1/5/2257:2261 | Mini UNCG | geometric HL_8XZL_001 HL_12111.1 | |
| HL_9GY4_028 | 1/5/2317:2322 | GNRA | homologous HL_8CRE_029 NA | |
| HL_9GY4_029 | 1/5/2376:2384 | T-loop with 2 stacked bulged bases | homologous HL_8CRE_030 NA | |
| HL_9GY4_030 | 1/5/2420:2426 | Pseudoknot geometry with 3' bulge | homologous HL_8CRE_031 NA | |
| HL_9GY4_031 | 1/5/2458:2463 | GNRA variation | homologous HL_8CRE_032 NA | |
| HL_9GY4_032 | 1/5/2523:2532 | No text annotation | homologous HL_8CRE_034 NA | |
| HL_9GY4_034 | 1/5/2578:2583 | GNRA | homologous HL_8CRE_035 NA | |
| HL_9GY4_035 | 1/5/2624:2632 | Pseudoknot geometry | homologous HL_8CRE_036 NA | |
| HL_9GY4_036 | 1/5/2664:2670 | Other HL | geometric HL_4V9F_039 HL_67772.1 | |
| HL_9GY4_037 | 1/5/2705:2710 | No text annotation | geometric HL_8P9A_207 HL_89167.2 | |
| HL_9GY4_038 | 1/5/2738:2742 | No text annotation | homologous HL_8CRE_039 NA | |
| HL_9GY4_039 | 1/5/2792:2799 | No text annotation | homologous HL_8CRE_040 NA | |
| HL_9GY4_040 | 1/5/2810:2816 | GNRA | homologous HL_8P9A_153 HL_34789.2 | |
| HL_9GY4_041 | 1/5/2872:2877 | UNCG | homologous HL_8P9A_154 HL_61337.2 | |
| HL_9GY4_042 | 1/5/3614:3618 | No text annotation | homologous HL_8CRE_043 NA | |
| HL_9GY4_043 | 1/5/3639:3649 | No text annotation | homologous HL_8P9A_157 HL_87681.1 | |
| HL_9GY4_044 | 1/5/3668:3674 | GNRA | homologous HL_8P9A_158 HL_34789.2 | |
| HL_9GY4_045 | 1/5/3724:3729 | GNRA | homologous HL_8P9A_159 HL_34789.2 | |
| HL_9GY4_046 | 1/5/3796:3804 | No text annotation | homologous HL_8CRE_048 NA | |
| HL_9GY4_047 | 1/5/3873:3882 | No text annotation | homologous HL_8P9A_162 HL_78372.1 | |
| HL_9GY4_048 | 1/5/4193:4201 | No text annotation | homologous HL_8P9A_165 HL_11974.2 | |
| HL_9GY4_049 | 1/5/4210:4222 | No text annotation | homologous HL_8CRE_054 NA | |
| HL_9GY4_050 | 1/5/4250:4258 | No text annotation | homologous HL_8CRE_055 NA | |
| HL_9GY4_051 | 1/5/4270:4277 | Pseudoknot geometry | homologous HL_8P9A_168 HL_52651.2 | |
| HL_9GY4_052 | 1/5/4301:4309 | No text annotation | homologous HL_8CRE_057 NA | |
| HL_9GY4_053 | 1/5/4321:4326 | GNRA | homologous HL_8CRE_058 NA | |
| HL_9GY4_054 | 1/5/4352:4362 | No text annotation | geometric HL_7JRT_001 HL_36265.1 | |
| HL_9GY4_055 | 1/5/4417:4425 | No text annotation | homologous HL_8CRE_060 NA | |
| HL_9GY4_056 | 1/5/4474:4481 | GNRA variation | homologous HL_8P9A_173 HL_46665.2 | |
| HL_9GY4_057 | 1/5/4497:4503 | No text annotation | homologous HL_8P9A_174 HL_48677.1 | |
| HL_9GY4_058 | 1/5/4540:4545 | GNRA | homologous HL_8P9A_175 HL_34789.2 | |
| HL_9GY4_059 | 1/5/4603:4608 | GNRA | homologous HL_8CRE_064 NA | |
| HL_9GY4_060 | 1/5/4646:4651 | No text annotation | homologous HL_8CRE_065 NA | |
| HL_9GY4_061 | 1/5/4688:4702 | No text annotation | homologous HL_8CRE_066 NA | |
| HL_9GY4_062 | 1/5/4907:4914 | No text annotation | geometric HL_8CRE_068 NA | |
| HL_9GY4_063 | 1/5/4975:4983 | No text annotation | homologous HL_8CRE_069 NA | |
| HL_9GY4_064 | 1/7/32:45 | No text annotation | geometric HL_8OI5_068 HL_01182.1 | |
| HL_9GY4_065 | 1/7/36:41 | No text annotation | homologous HL_8OI5_069 HL_59381.2 | |
| HL_9GY4_066 | 1/7/86:91 | GNRA | homologous HL_8OI5_070 HL_34789.2 | |
| HL_9GY4_067 | 1/8/47:56 | No text annotation | homologous HL_8CRE_074 NA | |
| HL_9GY4_068 | 1/8/107:112 | No text annotation | homologous HL_8P9A_188 HL_13184.2 | |
| HL_9GY4_071 | 1/G/52:62 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9GY4_021 | No text annotation | ||
| HL_9GY4_033 | GNRA | ||
| HL_9GY4_069 | No text annotation | ||
| HL_9GY4_070 | tRNA anticodon loop with synthetase |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9GY4_001 | 1/5/6:7, 1/8/149:151 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_9GY4_002 | 1/5/12:14, 1/8/143:144 | Single bulged U | homologous IL_8P9A_232 IL_97561.2 | |
| IL_9GY4_003 | 1/5/16:18, 1/8/139:141 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 IL_01003.2 | |
| IL_9GY4_004 | 1/5/26:27, 1/5/55:57 | Single stack bend | homologous IL_8CRE_004 NA | |
| IL_9GY4_005 | 1/5/30:37, 1/5/44:52 | tSH-tHW-tHH-tHS | homologous IL_8CRE_005 NA | |
| IL_9GY4_006 | 1/5/81:88, 1/5/96:102 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_1JBR_001 IL_62167.2 | |
| IL_9GY4_007 | 1/5/118:122, 1/5/147:153 | No text annotation | ||
| IL_9GY4_008 | 1/5/125:126, 1/5/142:144 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_9GY4_009 | 1/5/169:173, 1/5/263:266 | No text annotation | ||
| IL_9GY4_010 | 1/5/195:196, 1/5/244:246 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_9GY4_011 | 1/5/199:201, 1/5/214:215 | No text annotation | homologous IL_8CRE_013 NA | |
| IL_9GY4_012 | 1/5/339:342, 1/8/32:33 | Minor groove platform, major groove intercalation | geometric IL_1U9S_005 IL_55206.1 | |
| IL_9GY4_013 | 1/5/348:350, 1/8/25:26 | Single bulged A | homologous IL_8CRE_014 NA | |
| IL_9GY4_014 | 1/5/387:390, 1/5/401:414 | No text annotation | geometric IL_8CRE_015 NA | |
| IL_9GY4_015 | 1/5/415:421, 1/8/13:19 | No text annotation | homologous IL_8P9A_244 IL_22311.1 | |
| IL_9GY4_016 | 1/5/443:446, 1/5/1300:1304 | No text annotation | geometric IL_3MEI_004 IL_34618.2 | |
| IL_9GY4_017 | 1/5/448:450, 1/5/1297:1298 | Single bulged C | geometric IL_8P9A_297 IL_05642.2 | |
| IL_9GY4_018 | 1/5/459:460, 1/5/695:697 | Single bulged C | geometric IL_3W3S_001 IL_05642.2 | |
| IL_9GY4_019 | 1/5/462:464, 1/5/691:693 | Isolated non-canonical cWW pair | geometric IL_8PFQ_001 IL_01003.2 | |
| IL_9GY4_020 | 1/5/466:472, 1/5/682:689 | No text annotation | ||
| IL_9GY4_021 | 1/5/482:485, 1/5/671:672 | No text annotation | geometric IL_8CRE_398 IL_71421.2 | |
| IL_9GY4_022 | 1/5/487:488, 1/5/665:669 | No text annotation | ||
| IL_9GY4_024 | 1/5/709:710, 1/5/1286:1288 | Single bulged G | geometric IL_4LFB_036 IL_28408.2 | |
| IL_9GY4_025 | 1/5/723:724, 1/5/942:945 | Multiple bulged bases | geometric IL_7Q80_003 IL_05670.1 | |
| IL_9GY4_026 | 1/5/727:731, 1/5/938:939 | No text annotation | ||
| IL_9GY4_027 | 1/5/732:735, 1/5/928:937 | No text annotation | ||
| IL_9GY4_028 | 1/5/737:740, 1/5/924:926 | No text annotation | geometric IL_5J7L_341 NA | |
| IL_9GY4_029 | 1/5/740:742, 1/5/922:924 | Isolated non-canonical cWW pair | geometric IL_3GM7_002 IL_01003.2 | |
| IL_9GY4_030 | 1/5/745:752, 1/5/911:919 | No text annotation | geometric IL_8CRE_022 NA | |
| IL_9GY4_031 | 1/5/1073:1074, 1/5/1237:1239 | Single bulged A | geometric IL_4R4V_003 IL_14190.2 | |
| IL_9GY4_032 | 1/5/1082:1084, 1/5/1213:1217 | Isolated near basepair | geometric IL_7A0S_030 IL_42997.5 | |
| IL_9GY4_033 | 1/5/1086:1087, 1/5/1209:1211 | Single bulged C | geometric IL_3W3S_001 IL_05642.2 | |
| IL_9GY4_034 | 1/5/1096:1097, 1/5/1198:1200 | Single bulged G | geometric IL_4V9F_041 IL_28408.2 | |
| IL_9GY4_035 | 1/5/1172:1175, 1/5/1186:1189 | Tandem non-canonical cWW pairs | geometric IL_1MFQ_004 IL_15225.2 | |
| IL_9GY4_036 | 1/5/1244:1245, 1/5/1265:1267 | No text annotation | geometric IL_8CRE_048 NA | |
| IL_9GY4_037 | 1/5/1357:1360, 1/5/1379:1382 | No text annotation | ||
| IL_9GY4_038 | 1/5/1357:1361, 1/5/1376:1382 | No text annotation | ||
| IL_9GY4_039 | 1/5/1360:1361, 1/5/1376:1379 | Single bulged A | geometric IL_4V9F_090 IL_73464.1 | |
| IL_9GY4_040 | 1/5/1425:1429, 1/5/1455:1460 | No text annotation | geometric IL_3BBM_001 IL_47352.2 | |
| IL_9GY4_041 | 1/5/1431:1434, 1/5/1450:1453 | Double sheared | geometric IL_4KZD_002 IL_58355.2 | |
| IL_9GY4_042 | 1/5/1467:1468, 1/5/1496:1498 | Single bulged A | homologous IL_8CRE_026 NA | |
| IL_9GY4_043 | 1/5/1474:1476, 1/5/1488:1490 | Isolated non-canonical cWW pair | geometric IL_5ED1_002 IL_01003.2 | |
| IL_9GY4_044 | 1/5/1520:1522, 1/5/1655:1657 | Isolated non-canonical cWW pair | homologous IL_8P9A_255 IL_01003.2 | |
| IL_9GY4_045 | 1/5/1522:1526, 1/5/1648:1655 | No text annotation | homologous IL_8CRE_030 NA | |
| IL_9GY4_046 | 1/5/1545:1546, 1/5/1612:1614 | Single bulged A | homologous IL_8CRE_031 NA | |
| IL_9GY4_047 | 1/5/1550:1551, 1/5/1576:1578 | No text annotation | homologous IL_8CRE_032 NA | |
| IL_9GY4_048 | 1/5/1551:1555, 1/5/1572:1576 | Triple sheared | homologous IL_8CRE_033 NA | |
| IL_9GY4_049 | 1/5/1586:1589, 1/5/1605:1607 | No text annotation | homologous IL_8CRE_034 NA | |
| IL_9GY4_050 | 1/5/1590:1592, 1/5/1603:1604 | No text annotation | homologous IL_8CRE_035 NA | |
| IL_9GY4_051 | 1/5/1624:1626, 1/5/1636:1640 | No text annotation | homologous IL_8CRE_036 NA | |
| IL_9GY4_052 | 1/5/1671:1673, 1/5/1682:1684 | Isolated non-canonical cWW pair | homologous IL_8CRE_037 NA | |
| IL_9GY4_053 | 1/5/1686:1688, 1/5/1848:1851 | No text annotation | ||
| IL_9GY4_054 | 1/5/1723:1725, 1/5/1838:1839 | No text annotation | homologous IL_8CRE_040 NA | |
| IL_9GY4_055 | 1/5/1732:1737, 1/5/1792:1797 | No text annotation | ||
| IL_9GY4_056 | 1/5/1737:1738, 1/5/1790:1792 | Minor groove platform | homologous IL_8CRE_042 NA | |
| IL_9GY4_057 | 1/5/1739:1744, 1/5/1786:1789 | C-loop with bulged stacked A's | homologous IL_8CRE_043 NA | |
| IL_9GY4_058 | 1/5/1746:1749, 1/5/1781:1784 | Tandem non-canonical cWW pairs | homologous IL_8CRE_044 NA | |
| IL_9GY4_059 | 1/5/1749:1751, 1/5/1779:1781 | Isolated non-canonical cWW pair | homologous IL_8P9A_270 IL_01003.2 | |
| IL_9GY4_060 | 1/5/1753:1757, 1/5/1775:1777 | No text annotation | geometric IL_2OEU_001 IL_46387.3 | |
| IL_9GY4_061 | 1/5/1761:1763, 1/5/1769:1771 | No text annotation | ||
| IL_9GY4_062 | 1/5/1814:1816, 1/5/1823:1824 | Single bulged A | homologous IL_8P9A_273 IL_14190.2 | |
| IL_9GY4_063 | 1/5/1858:1860, 1/5/1874:1876 | Isolated non-canonical cWW pair | homologous IL_8P9A_274 IL_01003.2 | |
| IL_9GY4_065 | 1/5/1905:1909, 1/5/2067:2071 | UAA/GAN | homologous IL_8CRE_051 NA | |
| IL_9GY4_066 | 1/5/1911:1918, 1/5/2064:2065 | SSU/LSU pseudoknot | homologous IL_8CRE_052 NA | |
| IL_9GY4_067 | 1/5/1918:1920, 1/5/2063:2064 | Single bulged G | geometric IL_8TSV_002 IL_28408.2 | |
| IL_9GY4_068 | 1/5/1920:1922, 1/5/2062:2063 | No text annotation | ||
| IL_9GY4_069 | 1/5/1926:1933, 1/5/2053:2058 | No text annotation | homologous IL_8CRE_054 NA | |
| IL_9GY4_070 | 1/5/1933:1944, 1/5/2038:2053 | No text annotation | homologous IL_8P9A_280 IL_34501.1 | |
| IL_9GY4_071 | 1/5/1946:1948, 1/5/2035:2036 | Single bulged U | homologous IL_8P9A_281 IL_97561.2 | |
| IL_9GY4_072 | 1/5/1957:1965, 1/5/2022:2026 | Kink-turn | homologous IL_8CRE_057 NA | |
| IL_9GY4_073 | 1/5/1973:1978, 1/5/1989:1993 | No text annotation | ||
| IL_9GY4_074 | 1/5/2001:2005, 1/5/2014:2016 | No text annotation | homologous IL_8P9A_284 IL_36931.2 | |
| IL_9GY4_075 | 1/5/2083:2085, 1/5/2272:2273 | Single bulged C | geometric IL_4C7O_003 IL_05642.2 | |
| IL_9GY4_076 | 1/5/2290:2292, 1/5/2342:2345 | No text annotation | homologous IL_8CRE_061 NA | |
| IL_9GY4_077 | 1/5/2299:2301, 1/5/2334:2335 | Single bulged A | homologous IL_8CRE_062 NA | |
| IL_9GY4_078 | 1/5/2302:2309, 1/5/2329:2333 | Kink-turn | homologous IL_8P9A_287 IL_90775.2 | |
| IL_9GY4_079 | 1/5/2312:2314, 1/5/2325:2326 | Single bulged A | homologous IL_8P9A_288 IL_14190.2 | |
| IL_9GY4_080 | 1/5/2358:2364, 1/5/3858:3863 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_8CRE_065 NA | |
| IL_9GY4_081 | 1/5/2415:2419, 1/5/2427:2429 | C-loop | homologous IL_8CRE_066 NA | |
| IL_9GY4_082 | 1/5/2446:2450, 1/5/2509:2514 | UAA/GAN | homologous IL_8CRE_067 NA | |
| IL_9GY4_083 | 1/5/2477:2479, 1/5/2499:2500 | Minor groove platform | geometric IL_8P9A_267 IL_34520.2 | |
| IL_9GY4_084 | 1/5/2549:2550, 1/5/2768:2770 | No text annotation | homologous IL_8CRE_070 NA | |
| IL_9GY4_085 | 1/5/2589:2593, 1/5/2752:2756 | Triple sheared | homologous IL_8P9A_295 IL_15190.2 | |
| IL_9GY4_086 | 1/5/2613:2614, 1/5/2724:2726 | Single bulged C | homologous IL_8P9A_297 IL_05642.2 | |
| IL_9GY4_087 | 1/5/2614:2615, 1/5/2722:2724 | Single stack bend | homologous IL_8CRE_075 NA | |
| IL_9GY4_088 | 1/5/2646:2648, 1/5/2685:2688 | Isolated tHS basepair with bulges | geometric IL_4V9F_076 IL_87316.1 | |
| IL_9GY4_089 | 1/5/2651:2653, 1/5/2681:2682 | No text annotation | geometric IL_8ZA0_002 IL_28408.2 | |
| IL_9GY4_090 | 1/5/2656:2662, 1/5/2672:2678 | No text annotation | homologous IL_8P9A_301 IL_93476.1 | |
| IL_9GY4_091 | 1/5/2704:2705, 1/5/2710:2712 | No text annotation | ||
| IL_9GY4_092 | 1/5/2832:2838, 1/5/3850:3853 | No text annotation | homologous IL_8P9A_302 IL_89862.1 | |
| IL_9GY4_093 | 1/5/2844:2846, 1/5/3842:3844 | No text annotation | homologous IL_8P9A_303 IL_10432.1 | |
| IL_9GY4_094 | 1/5/2847:2850, 1/5/3840:3841 | Major groove platform; stack outside cWW | geometric IL_8P9A_304 IL_74641.2 | |
| IL_9GY4_095 | 1/5/2847:2855, 1/5/3837:3841 | No text annotation | geometric IL_8P9A_305 IL_80252.1 | |
| IL_9GY4_096 | 1/5/2850:2855, 1/5/3837:3840 | No text annotation | homologous IL_8P9A_306 IL_28217.1 | |
| IL_9GY4_097 | 1/5/2867:2872, 1/5/2877:2883 | No text annotation | homologous IL_8CRE_084 NA | |
| IL_9GY4_098 | 1/5/2889:2891, 1/5/3610:3612 | Isolated non-canonical cWW pair | homologous IL_8P9A_308 IL_01003.2 | |
| IL_9GY4_099 | 1/5/2896:2897, 1/5/3602:3605 | No text annotation | homologous IL_8P9A_309 IL_18824.1 | |
| IL_9GY4_100 | 1/5/3632:3633, 1/5/3827:3829 | Single bulged A | homologous IL_8P9A_310 IL_14190.2 | |
| IL_9GY4_101 | 1/5/3660:3665, 1/5/3677:3684 | No text annotation | homologous IL_8CRE_088 NA | |
| IL_9GY4_102 | 1/5/3700:3703, 1/5/3749:3750 | Minor groove platform, major groove intercalation | homologous IL_8CRE_089 NA | |
| IL_9GY4_103 | 1/5/3704:3705, 1/5/3745:3748 | Major groove intercalation | homologous IL_8P9A_313 IL_71421.2 | |
| IL_9GY4_104 | 1/5/3708:3710, 1/5/3741:3742 | Single bulged U | homologous IL_8P9A_314 IL_97561.2 | |
| IL_9GY4_105 | 1/5/3710:3714, 1/5/3739:3741 | No text annotation | homologous IL_8P9A_315 IL_70784.1 | |
| IL_9GY4_106 | 1/5/3715:3721, 1/5/3732:3738 | No text annotation | homologous IL_8CRE_093 NA | |
| IL_9GY4_107 | 1/5/3780:3781, 1/5/3811:3814 | No text annotation | geometric IL_8CRE_094 NA | |
| IL_9GY4_108 | 1/5/3781:3792, 1/5/3808:3811 | No text annotation | homologous IL_8CRE_095 NA | |
| IL_9GY4_109 | 1/5/3895:3898, 1/5/4563:4565 | No text annotation | homologous IL_8CRE_096 NA | |
| IL_9GY4_110 | 1/5/3900:3902, 1/5/4558:4561 | No text annotation | homologous IL_8CRE_097 NA | |
| IL_9GY4_111 | 1/5/3913:3915, 1/5/4388:4389 | No text annotation | homologous IL_8CRE_098 NA | |
| IL_9GY4_112 | 1/5/3916:3917, 1/5/4384:4387 | Minor groove platform | homologous IL_8CRE_099 NA | |
| IL_9GY4_113 | 1/5/3927:3929, 1/5/4181:4184 | No text annotation | homologous IL_8CRE_100 NA | |
| IL_9GY4_115 | 1/5/3955:3967, 1/5/4055:4057 | No text annotation | ||
| IL_9GY4_116 | 1/5/3967:3970, 1/5/4052:4055 | Tandem non-canonical cWW pairs | geometric IL_1MFQ_004 IL_15225.2 | |
| IL_9GY4_117 | 1/5/4082:4088, 1/5/4161:4164 | No text annotation | homologous IL_8CRE_106 NA | |
| IL_9GY4_119 | 1/5/4191:4192, 1/5/4202:4204 | Single bulged A | homologous IL_8P9A_325 IL_14190.2 | |
| IL_9GY4_120 | 1/5/4243:4245, 1/5/4263:4267 | No text annotation | homologous IL_8CRE_108 NA | |
| IL_9GY4_121 | 1/5/4291:4293, 1/5/4317:4318 | Single bulged A | geometric IL_7MKY_001 IL_14190.2 | |
| IL_9GY4_122 | 1/5/4295:4298, 1/5/4312:4315 | Tandem non-canonical cWW pairs | homologous IL_8P9A_327 IL_15225.2 | |
| IL_9GY4_123 | 1/5/4347:4350, 1/5/4364:4365 | Single stack bend | geometric IL_8P9A_328 IL_15011.2 | |
| IL_9GY4_124 | 1/5/4400:4401, 1/5/4442:4444 | Major groove platform | homologous IL_8P9A_329 IL_48076.8 | |
| IL_9GY4_125 | 1/5/4401:4403, 1/5/4440:4442 | Isolated non-canonical cWW pair | homologous IL_8P9A_330 IL_01003.2 | |
| IL_9GY4_126 | 1/5/4403:4405, 1/5/4439:4440 | No text annotation | homologous IL_8CRE_112 NA | |
| IL_9GY4_127 | 1/5/4405:4407, 1/5/4435:4439 | No text annotation | homologous IL_8CRE_113 NA | |
| IL_9GY4_128 | 1/5/4412:4416, 1/5/4426:4430 | Double sheared with non-canonical cWW | homologous IL_8CRE_114 NA | |
| IL_9GY4_129 | 1/5/4453:4454, 1/5/4526:4528 | No text annotation | homologous IL_8CRE_115 NA | |
| IL_9GY4_130 | 1/5/4456:4458, 1/5/4520:4524 | Isolated non-canonical cWW with bulges | homologous IL_8CRE_116 NA | |
| IL_9GY4_131 | 1/5/4458:4459, 1/5/4517:4520 | No text annotation | homologous IL_8P9A_336 IL_44609.2 | |
| IL_9GY4_132 | 1/5/4466:4470, 1/5/4485:4491 | No text annotation | ||
| IL_9GY4_133 | 1/5/4495:4497, 1/5/4503:4505 | Isolated non-canonical cWW pair | homologous IL_8CRE_121 NA | |
| IL_9GY4_134 | 1/5/4537:4538, 1/5/4547:4549 | Single bulged A | geometric IL_8P9A_399 IL_14190.2 | |
| IL_9GY4_135 | 1/5/4580:4582, 1/5/4721:4723 | Isolated cWH basepair | geometric IL_4E5C_001 IL_10892.2 | |
| IL_9GY4_136 | 1/5/4582:4585, 1/5/4717:4721 | Double sheared | geometric IL_7A0S_081 IL_58355.2 | |
| IL_9GY4_137 | 1/5/4590:4592, 1/5/4618:4620 | Isolated non-canonical cWW pair | homologous IL_8P9A_343 IL_71625.2 | |
| IL_9GY4_138 | 1/5/4596:4603, 1/5/4608:4614 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8CRE_125 NA | |
| IL_9GY4_139 | 1/5/4624:4629, 1/5/4669:4673 | No text annotation | ||
| IL_9GY4_140 | 1/5/4632:4637, 1/5/4662:4666 | No text annotation | homologous IL_8CRE_127 NA | |
| IL_9GY4_141 | 1/5/4638:4640, 1/5/4659:4661 | Isolated cWH basepair | geometric IL_3R1C_018 IL_10892.2 | |
| IL_9GY4_142 | 1/5/4641:4642, 1/5/4655:4658 | No text annotation | homologous IL_8P9A_347 NA | |
| IL_9GY4_143 | 1/5/4680:4685, 1/5/4705:4710 | UAA/GAN with extra cWW | geometric IL_5J7L_350 NA | |
| IL_9GY4_144 | 1/5/4740:4742, 1/5/4958:4959 | Single bulged C | geometric IL_4C7O_003 IL_05642.2 | |
| IL_9GY4_145 | 1/5/4743:4746, 1/5/4954:4957 | Tandem non-canonical cWW pairs | geometric IL_8CRE_440 IL_15225.2 | |
| IL_9GY4_146 | 1/5/4749:4751, 1/5/4948:4951 | No text annotation | ||
| IL_9GY4_147 | 1/5/4756:4765, 1/5/4869:4877 | No text annotation | ||
| IL_9GY4_148 | 1/5/4769:4771, 1/5/4863:4865 | Isolated non-canonical cWW pair | geometric IL_3TD0_006 NA | |
| IL_9GY4_149 | 1/5/4885:4889, 1/5/4930:4934 | Triple non-canonical cWW pairs | geometric IL_8S95_002 IL_71154.2 | |
| IL_9GY4_150 | 1/5/4891:4896, 1/5/4924:4928 | No text annotation | ||
| IL_9GY4_152 | 1/5/4972:4975, 1/5/4983:4986 | Tandem non-canonical cWW pairs | homologous IL_8CRE_135 NA | |
| IL_9GY4_153 | 1/5/4992:4994, 1/5/5057:5059 | Isolated non-canonical cWW pair | geometric IL_5UNE_007 IL_01003.2 | |
| IL_9GY4_154 | 1/5/4996:4997, 1/5/5053:5055 | Major groove intercalation | geometric IL_9DFE_107 IL_05642.2 | |
| IL_9GY4_155 | 1/5/5000:5002, 1/5/5045:5050 | No text annotation | homologous IL_8P9A_359 IL_00086.1 | |
| IL_9GY4_156 | 1/5/5003:5009, 1/5/5039:5044 | No text annotation | ||
| IL_9GY4_157 | 1/5/5012:5014, 1/5/5035:5036 | No text annotation | homologous IL_8CRE_140 NA | |
| IL_9GY4_158 | 1/5/5014:5017, 1/5/5032:5035 | Double sheared | homologous IL_8CRE_141 NA | |
| IL_9GY4_159 | 1/7/15:16, 1/7/62:64 | Single bulged A | homologous IL_8OI5_134 IL_14190.2 | |
| IL_9GY4_160 | 1/7/21:27, 1/7/52:57 | No text annotation | homologous IL_8OI5_135 IL_41504.1 | |
| IL_9GY4_161 | 1/7/28:29, 1/7/48:51 | No text annotation | homologous IL_9DFE_112 IL_73108.2 | |
| IL_9GY4_162 | 1/7/32:36, 1/7/41:45 | No text annotation | homologous IL_9DFE_113 IL_58103.12 | |
| IL_9GY4_163 | 1/7/71:78, 1/7/98:104 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8OI5_139 IL_62167.2 | |
| IL_9GY4_164 | 1/7/79:81, 1/7/95:97 | Isolated non-canonical cWW pair | homologous IL_7A0S_107 IL_71625.2 | |
| IL_9GY4_165 | 1/7/82:85, 1/7/92:94 | Isolated non-canonical cWW pair | homologous IL_8P9A_370 IL_01003.2 | |
| IL_9GY4_166 | 1/8/64:66, 1/8/92:95 | Isolated non-canonical cWW with bulges | homologous IL_8P9A_371 IL_76400.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9GY4_023 | Single stack bend | ||
| IL_9GY4_064 | No text annotation | ||
| IL_9GY4_114 | Isolated non-canonical cWW pair | ||
| IL_9GY4_118 | No text annotation | ||
| IL_9GY4_151 | Single bulged C | ||
| IL_9GY4_167 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9GY4_001 | 1/5/112:116, 1/5/155:160, 1/5/275:278 | No text annotation | ||
| J3_9GY4_002 | 1/5/196:199, 1/5/215:228, 1/5/240:244 | No text annotation | ||
| J3_9GY4_003 | 1/5/351:367, 1/5/374:379, 1/8/21:24 | No text annotation | homologous J3_8P9A_045 J3_07616.1 | |
| J3_9GY4_004 | 1/5/380:387, 1/5/414:415, 1/8/19:20 | No text annotation | geometric J3_5J7L_036 NA | |
| J3_9GY4_005 | 1/5/380:390, 1/5/401:415, 1/8/19:20 | No text annotation | homologous J3_8CRE_006 NA | |
| J3_9GY4_006 | 1/5/451:455, 1/5/701:705, 1/5/1292:1296 | No text annotation | ||
| J3_9GY4_007 | 1/5/712:713, 1/5/955:976, 1/5/1278:1284 | No text annotation | ||
| J3_9GY4_008 | 1/5/1531:1537, 1/5/1622:1624, 1/5/1640:1643 | No text annotation | homologous J3_8P9A_049 J3_46658.1 | |
| J3_9GY4_009 | 1/5/1546:1548, 1/5/1580:1584, 1/5/1609:1612 | No text annotation | homologous J3_8CRE_010 NA | |
| J3_9GY4_010 | 1/5/1726:1727, 1/5/1802:1806, 1/5/1832:1837 | No text annotation | homologous J3_8P9A_051 J3_84137.1 | |
| J3_9GY4_011 | 1/5/1969:1971, 1/5/1995:2001, 1/5/2016:2018 | No text annotation | homologous J3_8P9A_052 J3_37832.1 | |
| J3_9GY4_012 | 1/5/2393:2399, 1/5/2805:2807, 1/5/2819:2822 | No text annotation | homologous J3_8P9A_053 J3_05025.1 | |
| J3_9GY4_013 | 1/5/2402:2405, 1/5/2785:2791, 1/5/2800:2802 | No text annotation | homologous J3_8CRE_014 NA | |
| J3_9GY4_014 | 1/5/2440:2445, 1/5/2515:2519, 1/5/2536:2537 | No text annotation | homologous J3_8P9A_055 J3_94309.1 | |
| J3_9GY4_015 | 1/5/2451:2456, 1/5/2465:2476, 1/5/2501:2508 | No text annotation | ||
| J3_9GY4_016 | 1/5/2551:2555, 1/5/2572:2575, 1/5/2757:2767 | No text annotation | ||
| J3_9GY4_017 | 1/5/2575:2576, 1/5/2585:2589, 1/5/2756:2757 | No text annotation | homologous J3_8P9A_087 J3_05348.1 | |
| J3_9GY4_018 | 1/5/2598:2602, 1/5/2737:2738, 1/5/2742:2747 | No text annotation | homologous J3_8CRE_018 NA | |
| J3_9GY4_019 | 1/5/3937:3939, 1/5/4074:4078, 1/5/4168:4173 | Kink-turn 3-way junction | geometric J3_5J7L_044 NA | |
| J3_9GY4_020 | 1/5/4091:4094, 1/5/4114:4129, 1/5/4155:4158 | No text annotation | homologous J3_8CRE_020 NA | |
| J3_9GY4_021 | 1/5/4228:4230, 1/5/4331:4342, 1/5/4370:4375 | No text annotation | homologous J3_8CRE_021 NA | |
| J3_9GY4_022 | 1/5/4241:4243, 1/5/4267:4269, 1/5/4278:4283 | No text annotation | homologous J3_8P9A_062 J3_05327.1 | |
| J3_9GY4_023 | 1/5/4463:4466, 1/5/4491:4493, 1/5/4507:4513 | No text annotation | homologous J3_8CRE_023 NA | |
| J3_9GY4_024 | 1/5/4751:4754, 1/5/4879:4883, 1/5/4936:4948 | No text annotation | ||
| J3_9GY4_025 | 1/5/4970:4972, 1/5/4986:4991, 1/5/5060:5063 | No text annotation | ||
| J3_9GY4_026 | 1/7/9:14, 1/7/65:66, 1/7/109:110 | No text annotation | homologous J3_8P9A_066 J3_26985.1 | |
| J3_9GY4_027 | 1/8/44:45, 1/8/58:64, 1/8/95:99 | No text annotation | homologous J3_8CRE_027 NA | |
| J4_9GY4_001 | 1/5/111:112, 1/5/278:283, 1/5/304:310, 1/5/327:330 | No text annotation | homologous J4_8P9A_012 J4_94698.1 | |
| J4_9GY4_002 | 1/5/196:199, 1/5/215:222, 1/5/226:228, 1/5/240:244 | No text annotation | ||
| J4_9GY4_003 | 1/5/981:983, 1/5/1070:1072, 1/5/1240:1243, 1/5/1268:1273 | No text annotation | ||
| J4_9GY4_004 | 1/5/2365:2371, 1/5/2389:2391, 1/5/2824:2829, 1/5/3856:3857 | No text annotation | ||
| J4_9GY4_005 | 1/5/2406:2410, 1/5/2434:2439, 1/5/2538:2539, 1/5/2777:2784 | No text annotation | homologous J4_8CRE_004 NA | |
| J4_9GY4_006 | 1/5/2618:2619, 1/5/2637:2642, 1/5/2692:2698, 1/5/2718:2719 | No text annotation | ||
| J4_9GY4_007 | 1/5/3634:3638, 1/5/3650:3654, 1/5/3690:3694, 1/5/3821:3826 | No text annotation | homologous J4_8CRE_006 NA | |
| J4_9GY4_008 | 1/5/3696:3698, 1/5/3752:3753, 1/5/3771:3780, 1/5/3814:3819 | No text annotation | homologous J4_8P9A_018 J4_42306.1 | |
| J4_9GY4_009 | 1/5/4231:4235, 1/5/4289:4291, 1/5/4318:4319, 1/5/4328:4330 | No text annotation | ||
| J4_9GY4_010 | 1/5/4587:4590, 1/5/4620:4621, 1/5/4676:4678, 1/5/4712:4715 | No text annotation | ||
| J4_9GY4_011 | 1/G/7:10, 1/G/25:27, 1/G/43:49, 1/G/65:66 | tRNA junction | homologous J4_6UFH_001 J4_95067.1 | |
| J5_9GY4_001 | 1/5/19:21, 1/8/35:42, 1/8/101:106, 1/8/113:114, 1/8/136:138 | No text annotation | homologous J5_8CRE_001 NA | |
| J5_9GY4_002 | 1/5/1335:1340, 1/5/1516:1519, 1/5/1658:1661, 1/5/2288:2290, 1/5/2345:2351 | No text annotation | homologous J5_8CRE_002 NA | |
| J5_9GY4_003 | 1/5/2855:2863, 1/5/2887:2888, 1/5/3613:3614, 1/5/3618:3626, 1/5/3835:3837 | No text annotation | homologous J5_8CRE_004 NA | |
| J5_9GY4_004 | 1/5/3903:3910, 1/5/4392:4400, 1/5/4444:4453, 1/5/4528:4534, 1/5/4552:4557 | No text annotation | ||
| J5_9GY4_005 | 1/5/3920:3923, 1/5/4188:4191, 1/5/4204:4205, 1/5/4227:4228, 1/5/4375:4381 | No text annotation | homologous J5_8P9A_015 J5_96125.1 | |
| J6_9GY4_001 | 1/5/21:26, 1/5/57:67, 1/5/74:78, 1/5/105:109, 1/5/332:339, 1/8/33:35 | No text annotation | ||
| J6_9GY4_002 | 1/5/1352:1355, 1/5/1384:1388, 1/5/1395:1399, 1/5/1418:1421, 1/5/1464:1466, 1/5/1499:1504 | No text annotation | ||
| J6_9GY4_003 | 1/5/3920:3923, 1/5/4188:4191, 1/5/4204:4205, 1/5/4227:4230, 1/5/4331:4342, 1/5/4370:4381 | No text annotation | ||
| J7_9GY4_001 | 1/5/1666:1671, 1/5/1684:1685, 1/5/1852:1855, 1/5/1879:1884, 1/5/1895:1899, 1/5/2077:2078, 1/5/2278:2283 | No text annotation |
Problematic loops
No problematic loops
Coloring options: