6W6K | Motifs

36 Hairpin loops
81 Internal loops
26 Junction loops

Valid loops

Loop id	Location	Annotation; motif group	Mapped info
HL_6W6K_001	1/A/12:22	No text annotation	homologous HL_5J7L_001 NA
HL_6W6K_003	1/A/158:163	GNRA	homologous HL_4LFB_003 HL_34789.3
HL_6W6K_004	1/A/186:191	GNRA	homologous HL_5J7L_004 NA
HL_6W6K_006	1/A/259:267	GNRA related	homologous HL_5J7L_006 NA
HL_6W6K_007	1/A/296:301	GNRA	homologous HL_5J7L_007 NA
HL_6W6K_008	1/A/320:333	No text annotation	homologous HL_4LFB_008 HL_39665.1
HL_6W6K_010	1/A/379:384	GNRA	homologous HL_5J7L_010 NA
HL_6W6K_012	1/A/460:472	No text annotation
HL_6W6K_013	1/A/522:527	No text annotation	geometric HL_4WF9_003 HL_75660.7
HL_6W6K_014	1/A/617:623	GNRA-like with tWH	homologous HL_4LFB_014 HL_86621.1
HL_6W6K_020	1/A/897:902	GNRA	homologous HL_4LFB_020 HL_34789.3
HL_6W6K_021	1/A/963:972	No text annotation	homologous HL_4LFB_021 HL_97521.1
HL_6W6K_024	1/A/1076:1081	GNRA	homologous HL_4LFB_024 HL_34789.3
HL_6W6K_025	1/A/1089:1096	T-loop related	homologous HL_4LFB_025 HL_63894.2
HL_6W6K_030	1/A/1356:1366	No text annotation	homologous HL_4LFB_030 HL_86432.1

Problematic loops

loop id	Problem	Sequence
HL_6W6K_002	Deprecated	No text annotation
HL_6W6K_033	poor quality numbers	Mini UNCG with extended bulge
HL_6W6K_005	poor quality numbers	UNCG
HL_6W6K_034	Deprecated	tRNA D-loop
HL_6W6K_035	Deprecated	No text annotation
HL_6W6K_009	poor quality numbers	UNCG
HL_6W6K_011	poor quality numbers	UNCG
HL_6W6K_015	poor quality numbers	No text annotation
HL_6W6K_016	poor quality numbers	GNRA
HL_6W6K_017	poor quality numbers	No text annotation
HL_6W6K_018	poor quality numbers	No text annotation
HL_6W6K_036	Deprecated	GNRA with extra near cWW
HL_6W6K_019	poor quality numbers	GNRA
HL_6W6K_022	poor quality numbers	GNRA
HL_6W6K_023	poor quality numbers	No text annotation
HL_6W6K_026	poor quality numbers	No text annotation
HL_6W6K_027	poor quality numbers	GNRA
HL_6W6K_028	poor quality numbers	GNRA
HL_6W6K_029	poor quality numbers	T-loop with 3 stacked bulged bases
HL_6W6K_031	poor quality numbers	UNCG
HL_6W6K_032	poor quality numbers	GNRA

Valid loops

Loop id	Location	Annotation; motif group	Mapped info
IL_6W6K_001	1/A/30:32, 1/A/552:553	Single bulged G	homologous IL_5J7L_001 NA
IL_6W6K_067	1/A/44:45, 1/A/396:398	Single bulged A	homologous IL_5J7L_002 NA
IL_6W6K_003	1/A/47:52, 1/A/359:361	No text annotation	homologous IL_5J7L_003 NA
IL_6W6K_004	1/A/54:56, 1/A/356:357	Minor groove platform	homologous IL_4LFB_004 IL_34520.3
IL_6W6K_005	1/A/63:66, 1/A/103:104	Multiple bulged bases	homologous IL_5J7L_005 NA
IL_6W6K_006	1/A/67:69, 1/A/99:102	Minor groove platform with extra cWW	homologous IL_5J7L_006 NA
IL_6W6K_068	1/A/128:131, 1/A/231:233	Isolated non-canonical cWW pair	homologous IL_5J7L_009 NA
IL_6W6K_010	1/A/132:136, 1/A/227:230	No text annotation	geometric IL_4LFB_008 IL_60988.2
IL_6W6K_011	1/A/144:146, 1/A/176:178	Isolated cWH basepair	homologous IL_5J7L_011 NA
IL_6W6K_012	1/A/146:148, 1/A/175:176	Single stack bend	geometric IL_7KGA_003 IL_15011.2
IL_6W6K_015	1/A/242:247, 1/A/277:284	Kink-turn with non-sequential stacking	homologous IL_6CZR_123 NA
IL_6W6K_016	1/A/249:252, 1/A/274:275	No text annotation	homologous IL_5J7L_015 NA
IL_6W6K_017	1/A/292:293, 1/A/304:308	C-loop	homologous IL_4LFB_013 IL_06671.1
IL_6W6K_019	1/A/367:369, 1/A/392:393	Single bulged U	geometric IL_4V9F_074 IL_97561.3
IL_6W6K_020	1/A/371:375, 1/A/389:390	C-loop	geometric IL_4LFB_015 IL_26900.1
IL_6W6K_021	1/A/375:376, 1/A/387:389	Single bulged G	homologous IL_5J7L_019 NA
IL_6W6K_077	1/A/409:416, 1/A/427:433	No text annotation	homologous IL_5J7L_020 NA
IL_6W6K_023	1/A/440:442, 1/A/492:497	No text annotation	homologous IL_5J7L_021 NA
IL_6W6K_024	1/A/446:450, 1/A/483:488	tSH-tHW-tWW	geometric IL_5J7L_022 NA
IL_6W6K_025	1/A/450:455, 1/A/477:483	No text annotation	homologous IL_5J7L_023 NA
IL_6W6K_026	1/A/504:511, 1/A/540:541	SSU/LSU pseudoknot	homologous IL_5J7L_024 NA
IL_6W6K_027	1/A/515:521, 1/A/528:536	Kink-turn related	geometric IL_4V88_415 NA
IL_6W6K_028	1/A/569:575, 1/A/880:881	No text annotation	homologous IL_6CZR_134 NA
IL_6W6K_030	1/A/594:597, 1/A/643:645	No text annotation	homologous IL_6CZR_136 NA
IL_6W6K_079	1/A/594:598, 1/A/640:645	No text annotation
IL_6W6K_080	1/A/603:612, 1/A/628:635	No text annotation
IL_6W6K_032	1/A/604:612, 1/A/628:634	No text annotation	homologous IL_4LFB_026 IL_04211.1
IL_6W6K_039	1/A/887:894, 1/A/905:910	8x6 Sarcin-Ricin with inserted Y; G-bulge	homologous IL_4LFB_034 IL_84044.1
IL_6W6K_040	1/A/922:923, 1/A/1393:1395	Single bulged A	homologous IL_5J7L_039 NA
IL_6W6K_041	1/A/925:927, 1/A/1390:1391	Single bulged G	homologous IL_5J7L_040 NA
IL_6W6K_046	1/A/1048:1050, 1/A/1208:1209	Single bulged U	homologous IL_5J7L_046 NA
IL_6W6K_047	1/A/1052:1056, 1/A/1204:1206	Isolated cWS basepair	homologous IL_4LFB_044 IL_82453.1
IL_6W6K_048	1/A/1057:1058, 1/A/1199:1203	Minor groove platform	homologous IL_4LFB_045 IL_24264.1
IL_6W6K_049	1/A/1060:1061, 1/A/1195:1197	Single bulged U	homologous IL_4LFB_046 IL_97561.3
IL_6W6K_050	1/A/1061:1063, 1/A/1193:1195	Isolated non-canonical cWW pair	geometric IL_1U9S_007 IL_01003.3
IL_6W6K_054	1/A/1247:1253, 1/A/1284:1290	No text annotation	homologous IL_5J7L_054 NA
IL_6W6K_055	1/A/1255:1258, 1/A/1277:1282	No text annotation
IL_6W6K_058	1/A/1399:1401, 1/A/1501:1504	No text annotation	homologous IL_6CZR_165 NA
IL_6W6K_059	1/A/1401:1404, 1/A/1497:1501	No text annotation	geometric IL_4V88_464 NA
IL_6W6K_062	1/A/1412:1414, 1/A/1486:1488	Isolated non-canonical cWW pair	homologous IL_4LFB_059 IL_01003.3
IL_6W6K_064	1/A/1430:1435, 1/A/1466:1470	Triple sheared related	homologous IL_5J7L_063 NA

Problematic loops

loop id	Problem	Sequence
IL_6W6K_002	Deprecated	Isolated non-canonical cWW pair
IL_6W6K_007	poor quality numbers	Minor groove platform
IL_6W6K_008	poor quality numbers	Single bulged G
IL_6W6K_009	Deprecated	Tandem non-canonical cWW pairs
IL_6W6K_069	Deprecated	No text annotation
IL_6W6K_013	poor quality numbers	No text annotation
IL_6W6K_070	poor quality numbers	Minor groove platform, major groove intercalation
IL_6W6K_014	Deprecated	No text annotation
IL_6W6K_018	poor quality numbers	No text annotation
IL_6W6K_022	Deprecated	No text annotation
IL_6W6K_071	Deprecated	No text annotation
IL_6W6K_029	Deprecated	No text annotation
IL_6W6K_078	poor quality numbers	tSH-tHW-tHS-cWW
IL_6W6K_072	Deprecated	No text annotation
IL_6W6K_031	poor quality numbers	Major groove minor groove platform; mini C-loop
IL_6W6K_073	Deprecated	No text annotation
IL_6W6K_033	poor quality numbers	Major groove platform; stack outside cWW
IL_6W6K_034	poor quality numbers	No text annotation
IL_6W6K_035	poor quality numbers	No text annotation
IL_6W6K_036	poor quality numbers	Single stack bend
IL_6W6K_037	poor quality numbers	Kink-turn
IL_6W6K_038	poor quality numbers	No text annotation
IL_6W6K_074	Deprecated	Isolated non-canonical cWW with bulges
IL_6W6K_075	Deprecated	Isolated non-canonical cWW contact
IL_6W6K_042	poor quality numbers	Minor groove platform
IL_6W6K_043	poor quality numbers	No text annotation
IL_6W6K_044	poor quality numbers	Minor groove platform
IL_6W6K_045	poor quality numbers	Single stack bend
IL_6W6K_081	poor quality numbers	No text annotation
IL_6W6K_051	Deprecated	No text annotation
IL_6W6K_052	poor quality numbers	Minor groove platform
IL_6W6K_053	poor quality numbers	No text annotation
IL_6W6K_056	poor quality numbers	Double sheared with non-canonical cWW
IL_6W6K_057	poor quality numbers	No text annotation
IL_6W6K_060	poor quality numbers	Isolated non-canonical cWW pair
IL_6W6K_061	poor quality numbers	No text annotation
IL_6W6K_076	Deprecated	No text annotation
IL_6W6K_063	poor quality numbers	Double sheared
IL_6W6K_065	poor quality numbers	Single bulged A
IL_6W6K_066	poor quality numbers	No text annotation

Valid loops

Loop id	Location	Annotation; motif group	Mapped info
J3_6W6K_001	1/A/46:47, 1/A/361:367, 1/A/393:395	No text annotation	homologous J3_5J7L_001 NA
J3_6W6K_012	1/A/46:52, 1/A/359:367, 1/A/393:395	No text annotation	homologous J3_5J7L_050 NA
J3_6W6K_016	1/A/936:939, 1/A/1344:1350, 1/A/1372:1379	No text annotation	homologous J3_4LFB_002 J3_85722.1
J3_6W6K_004	1/A/943:946, 1/A/1235:1237, 1/A/1337:1340	No text annotation	homologous J3_4LFB_003 J3_44359.1
J3_6W6K_005	1/A/955:962, 1/A/973:984, 1/A/1221:1225	No text annotation	homologous J3_4LFB_004 J3_88451.1
J3_6W6K_008	1/A/1063:1068, 1/A/1107:1113, 1/A/1187:1193	No text annotation	homologous J3_5J7L_008 NA
J3_6W6K_009	1/A/1073:1074, 1/A/1083:1087, 1/A/1098:1102	No text annotation	homologous J3_6CZR_024 NA
J3_6W6K_011	1/A/1237:1241, 1/A/1296:1303, 1/A/1334:1337	No text annotation	homologous J3_4LFB_009 J3_03192.1
J4_6W6K_001	1/A/115:122, 1/A/239:240, 1/A/286:289, 1/A/311:312	No text annotation	homologous J4_6CZR_027 NA
J4_6W6K_002	1/A/141:146, 1/A/176:184, 1/A/193:198, 1/A/219:222	No text annotation
J4_6W6K_003	1/A/575:577, 1/A/764:769, 1/A/810:821, 1/A/879:880	No text annotation	homologous J4_4LFB_003 J4_14595.1
J5_6W6K_001	1/A/36:39, 1/A/403:406, 1/A/436:440, 1/A/497:500, 1/A/545:548	No text annotation	homologous J5_5J7L_001 NA
J5_6W6K_003	1/A/58:61, 1/A/106:113, 1/A/314:316, 1/A/337:340, 1/A/349:354	No text annotation

Problematic loops

loop id	Problem	Sequence
J3_6W6K_002	poor quality numbers	No text annotation
J3_6W6K_013	poor quality numbers	No text annotation
J3_6W6K_020	poor quality numbers	No text annotation
J3_6W6K_014	Deprecated	No text annotation
J3_6W6K_015	Deprecated	No text annotation
J3_6W6K_003	poor quality numbers	No text annotation
J3_6W6K_006	poor quality numbers	No text annotation
J3_6W6K_017	poor quality numbers	No text annotation
J3_6W6K_007	poor quality numbers	No text annotation
J3_6W6K_018	Deprecated	No text annotation
J3_6W6K_010	poor quality numbers	No text annotation
J3_6W6K_019	poor quality numbers	No text annotation
J5_6W6K_002	Deprecated	No text annotation

Coloring options: Nucleotide numbers

6W6K Hairpin, Internal, and multi-helix Junction Loop Motifs

Valid loops

Problematic loops

Valid loops

Problematic loops

Valid loops

Problematic loops