Summary

Clan

This family is a member of clan (CL00120), which contains the following 3 members:

twister-P1 twister-P3 Twister-P5

Wikipedia annotation Edit Wikipedia article

The Rfam group coordinates the annotation of Rfam families in Wikipedia. This family is described by a Wikipedia entry Twister ribozyme. More...

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Sequences

Quick actions

Table view (228 sequence regions)

Original order	Accession	Bit score	Type	Start	End	Description	Species
0	URS0000D6D406_12908	N/A	seed	1	80	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
1	URS0000D68144_12908	N/A	seed	1	96	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
2	URS0000D65CF3_12908	N/A	seed	1	73	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
3	URS0000D6AB9F_12908	N/A	seed	1	73	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
4	URS0000D6C22B_12908	N/A	seed	1	88	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
5	URS0000D6A120_12908	N/A	seed	1	51	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
6	URS0000D6C76A_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
7	URS0000D677AB_12908	N/A	seed	1	54	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
8	URS0000C37A95_12908	N/A	seed	1	61	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
9	URS0000D69371_12908	N/A	seed	1	81	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
10	URS0000D6741A_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
11	URS0000D66B07_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
12	URS0000D698E1_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
13	URS0000D65E8F_12908	N/A	seed	1	68	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
14	URS0000D6903C_12908	N/A	seed	1	52	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
15	URS0000C0623A_7668	N/A	seed	1	60	Strongylocentrotus purpuratus Type-P5 twister ribozyme ribozyme sequence	Strongylocentrotus purpuratus
16	URS0000D6BDAE_12908	N/A	seed	1	76	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
17	URS0000D67027_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
18	URS0000D6C7D0_12908	N/A	seed	1	73	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
19	URS0000D6D300_12908	N/A	seed	1	93	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
20	URS0000D6B4D5_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
21	URS0000D676AA_12908	N/A	seed	1	75	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
22	URS0000D66742_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
23	URS0000D6978E_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
24	URS0000D6A809_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
25	URS0000D673ED_12908	N/A	seed	1	67	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
26	URS0000D664CA_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
27	URS0000D6A820_12908	N/A	seed	1	52	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
28	URS0000D69814_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
29	URS0000D68968_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
30	URS0000D6A631_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
31	URS0000D659C6_12908	N/A	seed	1	54	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
32	URS0000D6A8E2_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
33	URS0000D6A43C_12908	N/A	seed	1	61	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
34	URS0000D6BEFB_12908	N/A	seed	1	76	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
35	URS0000D69A74_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
36	URS0000D68421_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
37	URS0000D6A1F7_12908	N/A	seed	1	85	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
38	URS0000D6815A_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
39	URS0000D66CFD_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
40	URS0000D6621A_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
41	URS0000D6B9CF_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
42	URS0000D6B4AE_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
43	URS0000D6BD93_12908	N/A	seed	1	52	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
44	URS0000D67D62_588581	N/A	seed	1	62	Clostridium papyrosolvens DSM 2782 Type-P5 twister ribozyme	Clostridium papyrosolvens DSM 2782
45	URS0000D6A331_12908	N/A	seed	1	62	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
46	URS0000D68393_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
47	URS0000D66A8E_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
48	URS0000C89FAC_12908	N/A	seed	1	65	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
49	URS0000D6D0D1_12908	N/A	seed	1	62	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
50	URS0000D6B32F_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
51	URS0000D66B84_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
52	URS0000D6A6D2_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
53	URS0000D6B9B1_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
54	URS0000D6C59E_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
55	URS0000D67D31_12908	N/A	seed	1	61	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
56	URS0000D68A81_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
57	URS0000C85452_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
58	URS0000D6B5C8_12908	N/A	seed	1	61	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
59	URS0000D65BE6_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
60	URS0000D6A337_12908	N/A	seed	1	53	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
61	URS0000D6AE6C_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
62	URS0000D67A6A_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
63	URS0000D674EA_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
64	URS0000D6987C_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
65	URS0000D67024_12908	N/A	seed	1	67	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
66	URS0000D6CB3C_12908	N/A	seed	1	69	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
67	URS0000D65E30_12908	N/A	seed	1	82	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
68	URS0000D6BF4E_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
69	URS0000D65B03_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
70	URS0000D68B23_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
71	URS0000D6C4E0_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
72	URS0000D6961C_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
73	URS0000D69216_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
74	URS0000D69D69_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
75	URS0000D66099_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
76	URS0000D67E5D_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
77	URS0000D682F3_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
78	URS0000D6B30B_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
79	URS0000D6628B_12908	N/A	seed	1	53	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
80	URS0000D68F29_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
81	URS0000D68418_12908	N/A	seed	1	61	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
82	URS0000D66B72_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
83	URS0000D673FE_12908	N/A	seed	1	61	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
84	URS0000D6AF61_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
85	URS0000D6C0E5_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
86	URS0000D65F7D_12908	N/A	seed	1	74	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
87	URS0000D6C1E6_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
88	URS0000D66862_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
89	URS0000D67F1D_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
90	URS0000D6D1E3_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
91	URS0000D666BB_12908	N/A	seed	1	68	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
92	URS0000D66497_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
93	URS0000D68E4A_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
94	URS0000C63B9F_12908	N/A	seed	1	65	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
95	URS0000D6C6F2_12908	N/A	seed	1	95	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
96	URS0000D695B5_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
97	URS0000C6CABB_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
98	URS0000D6B9ED_12908	N/A	seed	1	80	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
99	URS0000D6A4AF_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
100	URS0000D6ADE8_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
101	URS0000D6CAAA_12908	N/A	seed	1	62	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
102	URS0000D670F9_12908	N/A	seed	1	62	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
103	URS0000D67716_12908	N/A	seed	1	51	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
104	URS0000D67596_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
105	URS0000D69265_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
106	URS0000D68946_12908	N/A	seed	1	77	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
107	URS0000D66C8E_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
108	URS0000D669A5_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
109	URS0000D6AAF5_12908	N/A	seed	1	54	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
110	URS0000D6B772_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
111	URS0000D67CB5_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
112	URS0000D6668C_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
113	URS0000C2797F_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
114	URS0000D6A369_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
115	URS0000D6A4F4_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
116	URS0000D6C635_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
117	URS0000D67CFC_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
118	URS0000C44533_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
119	URS0000D6ABF1_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
120	URS0000D6908F_12908	N/A	seed	1	84	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
121	URS0000D6C96E_12908	N/A	seed	1	84	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
122	URS0000D66300_12908	N/A	seed	1	84	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
123	URS0000D672CE_12908	N/A	seed	1	84	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
124	URS0000D67B5C_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
125	URS0000D69AEB_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
126	URS0000D6C01A_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
127	URS0000D67C6F_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
128	URS0000D6AB22_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
129	URS0000D6874F_12908	N/A	seed	1	71	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
130	URS0000D65BBE_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
131	URS0000D6793B_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
132	URS0000D661AE_12908	N/A	seed	1	84	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
133	URS0000D67303_12908	N/A	seed	1	72	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
134	URS0000D65B6E_12908	N/A	seed	1	61	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
135	URS0000D694A0_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
136	URS0000D69839_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
137	URS0000D65F07_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
138	URS0000D67D74_12908	N/A	seed	1	76	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
139	URS0000D6BD33_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
140	URS0000D68769_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
141	URS0000D6B56A_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
142	URS0000D66CB0_12908	N/A	seed	1	52	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
143	URS0000D6A8C9_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
144	URS0000D6956A_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
145	URS0000D69B27_12908	N/A	seed	1	65	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
146	URS0000D66614_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
147	URS0000C2F82F_203119	N/A	seed	1	58	Clostridium thermocellum ATCC 27405 Type-P5 twister ribozyme	Clostridium thermocellum ATCC 27405
148	URS0000D6BB16_12908	N/A	seed	1	70	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
149	URS0000D68149_12908	N/A	seed	1	70	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
150	URS0000D66134_12908	N/A	seed	1	70	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
151	URS0000D68BA4_12908	N/A	seed	1	70	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
152	URS0000D6A869_12908	N/A	seed	1	70	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
153	URS0000D66D9E_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
154	URS0000D69ACD_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
155	URS0000D6666A_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
156	URS0000C3856A_518636	N/A	seed	1	57	Clostridium asparagiforme DSM 15981 Type-P5 twister ribozyme	Clostridium asparagiforme DSM 15981
157	URS0000D667A1_12908	N/A	seed	1	67	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
158	URS0000D6B250_12908	N/A	seed	1	68	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
159	URS0000D6D203_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
160	URS0000D69807_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
161	URS0000D6C98A_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
162	URS0000D69881_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
163	URS0000D6A31C_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
164	URS0000D685A4_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
165	URS0000D69650_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
166	URS0000D65F1C_12908	N/A	seed	1	67	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
167	URS0000D691BF_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
168	URS0000D6BF73_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
169	URS0000D66558_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
170	URS0000D670D4_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
171	URS0000D69BF9_12908	N/A	seed	1	65	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
172	URS0000D67A50_12908	N/A	seed	1	54	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
173	URS0000D69B9C_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
174	URS0000D6C511_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
175	URS0000D6AE3C_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
176	URS0000D6677F_12908	N/A	seed	1	50	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
177	URS0000D67B9D_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
178	URS0000D680E2_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
179	URS0000D69B1F_12908	N/A	seed	1	57	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
180	URS0000D6BE11_12908	N/A	seed	1	53	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
181	URS0000D6D15E_12908	N/A	seed	1	66	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
182	URS0000D6A545_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
183	URS0000D668F5_12908	N/A	seed	1	58	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
184	URS0000D69994_12908	N/A	seed	1	53	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
185	URS0000D6742A_12908	N/A	seed	1	53	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
186	URS0000D67A9C_12908	N/A	seed	1	65	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
187	URS0000C39150_12908	N/A	seed	1	64	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
188	URS0000D68FEA_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
189	URS0000D664BF_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
190	URS0000D6A1C5_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
191	URS0000D6978B_12908	N/A	seed	1	51	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
192	URS0000D6CDA1_12908	N/A	seed	1	65	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
193	URS0000D69F0C_12908	N/A	seed	1	62	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
194	URS0000D68F93_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
195	URS0000D66A1E_12908	N/A	seed	1	63	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
196	URS0000D66C79_12908	N/A	seed	1	60	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
197	URS0000C46050_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
198	URS0000D67141_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
199	URS0000D67A0C_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
200	URS0000D699D2_12908	N/A	seed	1	105	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
201	URS0000D6AFFA_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
202	URS0000C6C314_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
203	URS0000D6BA3F_12908	N/A	seed	1	54	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
204	URS0000D66398_12908	N/A	seed	1	53	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
205	URS0000D6AAF8_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
206	URS0000D66C9C_12908	N/A	seed	1	56	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
207	URS0000D6791A_12908	N/A	seed	1	52	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
208	URS0000D6B8C3_12908	N/A	seed	1	68	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
209	URS0000D66167_12908	N/A	seed	1	75	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
210	URS0000D68594_12908	N/A	seed	1	55	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
211	URS0000D695D2_12908	N/A	seed	1	54	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
212	URS0000D6A3A6_12908	N/A	seed	1	59	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
213	URS0000D693E0_12908	N/A	seed	1	53	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
214	URS0000D68B9E_12908	N/A	seed	1	54	unclassified sequences Type-P5 twister ribozyme ribozyme sequence	unclassified sequences
0	JYNH01000035.1	63.30	full	10,144	10,090	Desulfosporosinus sp. I2 contig00035, whole genome shotgun sequence.	Desulfosporosinus sp. I2
1	MASS01000038.1	62.00	full	13,767	13,713	MASS01000038.1 Desulfosporosinus sp. BG contig00038, whole genome shotgun sequence	Desulfosporosinus sp. BG
2	JYNH01000035.1	61.50	full	8,936	8,881	Desulfosporosinus sp. I2 contig00035, whole genome shotgun sequence.	Desulfosporosinus sp. I2
3	VWXL01000078.1	57.80	full	2,918	2,862	VWXL01000078.1 Caproicibacter fermentans strain EA1 CAFE_78, whole genome shotgun sequence	Caproicibacter fermentans
4	JAGSCS010000014.1	53.20	full	37,080	37,132	JAGSCS010000014.1 Proteiniclasticum sediminis strain BAD-10 BAD-10_scaffold14, whole genome shotgun sequence	Proteiniclasticum sediminis
5	LR778135.1	52.50	full	858,844	858,792	LR778135.1 Clostridiales bacterium isolate BL-6 genome assembly, chromosome: CLOSBL6	Ruminococcaceae bacterium BL-6
6	CP036273.1	48.10	full	3,048,685	3,048,741	CP036273.1 Urbifossiella limnaea strain ETA_A1 chromosome, complete genome	Urbifossiella limnaea
7	MZGX01000001.1	44.70	full	225,396	225,460	[Clostridium] hungatei strain DSM 14427 CLHUN_contig000001, whole genome shotgun sequence.	Clostridium hungatei
8	SLUI01000011.1	43.60	full	134,430	134,377	SLUI01000011.1 Anaerospora hongkongensis strain DSM 15969 Ga0310510_111, whole genome shotgun sequence	Anaerospora hongkongensis
9	CP146992.1	42.30	full	56,524	56,583	CP146992.1 Sporomusa sphaeroides DSM 2875 plasmid pSSP59, complete sequence	Sporomusa sphaeroides DSM 2875
10	CP000568.1	39.50	full	1,248,079	1,248,136	Clostridium thermocellum ATCC 27405, complete genome.	Clostridium thermocellum ATCC 27405
11	KL203085.1	38.00	full	4,743,147	4,743,218	KL203085.1 Nannospalax galili isolate Female #2095 unplaced genomic scaffold scaffold281, whole genome shotgun sequence	Nannospalax galili (Upper Galilee mountains blind mole rat)
12	BGPR01000062.1	37.70	full	99,725	99,782	BGPR01000062.1 Araneus ventricosus DNA, scaffold_61, whole genome shotgun sequence	Araneus ventricosus

Alignment

There are various ways to view or download the seed alignments that we store. You can use a sequence viewer to look at them, or you can look at a plain text version of the sequence in a variety of different formats. More...

View options

You can view Rfam seed alignments in your browser in various ways. Choose the viewer that you want to use and click the "View" button to show the alignment in a pop-up window.

Formatting options

You can view or download Rfam seed alignments in several formats. Check either the "download" button, to save the formatted alignment, or "view", to see it in your browser window, and click "Generate".

Download

Download a gzip-compressed, Stockholm-format file containing the seed alignment for this family. You may find RALEE useful when viewing sequence alignments.

Submit a new alignment

We're happy receive updated seed alignments for new or existing families. Submit your new alignment and we'll take a look.

Secondary structure

This section shows a variety of different secondary structure representations for this family. More...

In this page you can view static images showing the secondary structure of this family using a variety of colouring schemes:

Conservation (cons): this plot colours each character by how well conserved it is. A site with 100% sequence conservation is coloured red, 0% is violet.

Covariation (cov): this plot colours each base-pair according to how much the corresponding nucleotides are co-varying. A base-pair position at which every pair of nucleotides is co-variant with respect to every other pair in the alignment gets a score of 2 and is coloured red. Conversely, a base-pair position at every pair is anti-co-variant with respect to every other pair (e.g. lots of mutations to non-canonical pairs) gets a score of -2 and is coloured violet. Further information on this metric can be found in this document.

Sequence entropy (ent): this plot colours each character by how under- or over-represented the residues at the site are. Sites where one or more nucleotides are over-represented while the other nucleotides are either non-existent or near the background frequencies, receive positive scores; sites where all the nucleotides are under-represented receive negative scores. Further information on this metric can be found in this document.

Fraction of canonical basepairs (fcbp): this plot colours each base-pair by the percentage of canonical basepairs (A:U, C:G, G:U) which are found in the corresponding position in the alignment. A pair of sites with 100% canonical pairs is coloured red, a site with 0% is violet.

Maximum parse of the covariance model (maxcm): this plot takes the covariance model for the family and generates the sequence with the maximum possible score for that model. Each character is coloured by how many bits it contributes to the total score.

Sequence: for most of the above cases, the representative sequence used for the backbone is the most informative sequence (MIS). Any residue that has a higher frequency than than the background frequency is projected into the IUPAC redundancy codes.

Normal: this plot simply colours each stem loop

R-chie (rchie): arc diagrams showing secondary structure, calculated using the R-chie package. The consensus secondary structure is visualized as arc diagrams on top of each diagram, where a basepair in an arc, connect two columns of the block of sequences below. The block of sequences below represent the multiple sequence alignment of the Rfam seed, where each sequence is a horizontal strip. Sequences in the alignments are ordered so sequences that best fit the structure are on top, and those that do not fit as well are towards the bottom. For seed alignments for over 500 sequences, 500 random sequences were chosen. Rfam entries without sturcture have a blank plot. Colour information can be found on the R-chie FAQ.

You can also view the secondary structure in the VARNA applet. The applet is shown in a separate pop-up window.

Acknowledgements

The bulk of the code for generating these graphics was kindly supplied by Andreas Gruber and Ivo Hofacker. The statistics were implemented by Rfam.

The VARNA applet is developed by Yann Ponty et al:

VARNA: Interactive drawing and editing of the RNA secondary structure: Kévin Darty, Alain Denise and Yann Ponty Bioinformatics (2009) 25:1974-1975

The R-chie arc diagrams were calculated using R-chie:

R-chie: a web server and R package for visualizing RNA secondary structures: Daniel Lai, Jeff R. Proctor, Jing Yun A. Zhu, and Irmtraud M. Meyer Nucleic Acids Research (2012) first published online March 19, 2012

You can view the secondary structure of the family using the VARNA applet. You can see more information about VARNA iself here.

Current Rfam structure

20 out of 20 basepairs are significant at E-value=0.05

R-scape optimised structure

22 out of 25 basepairs are significant at E-value=0.05

Colours
Statistically significant basepair with covariation
97% conserved nucleotide
90% conserved nucleotide
75% conserved nucleotide
50% conserved nucleotide
Nucleotides
R: A or G
Y: C or U

Tip: The diagrams are interactive:
you can pan and zoom to see more details
or hover over nucleotides and basepairs.

R-scape is a method for testing whether covariation analysis supports the presence of a conserved RNA secondary structure. This page shows R-scape analysis of the secondary structure from the Rfam seed alignment and a new structure with covariation support that is compatible with the same alignment.

To find out more about the method, see the R-scape paper by Rivas et al., 2016. The structures are visualised using R2R.

Move your mouse over the image to show details and click to show full image.

Arc colours
100% canonical basepair
50%
0%
Nucleotide colours
Valid basepairing
Two-sided covariation
One-sided covariation
Invalid
Unpaired
Gap
Ambiguous

Species distribution

Sunburst
Tree

Sunburst controls

Hide

Lineage

Move your mouse over the main tree to show the lineage of a particular node.

You can move this pane by dragging it.

Weight segments by...

number of sequences
number of species

Change the size of the sunburst

Small

Large

Colour assignments

Archea	Eukaryota
Bacteria	Other sequences
Viruses	Unclassified
Viroids	Unclassified sequence

Selections

Click on a node to select that node and its sub-tree.

Clear selection

This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

This chart is a modified "sunburst" visualisation of the species tree for this family. It shows each node in the tree as a separate arc, arranged radially with the superkingdoms at the centre and the species arrayed around the outermost ring.

How the sunburst is generated

The tree is built by considering the taxonomic lineage of each sequence that has a match to this family. For each node in the resulting tree, we draw an arc in the sunburst. The radius of the arc, its distance from the root node at the centre of the sunburst, shows the taxonomic level ("superkingdom", "kingdom", etc). The length of the arc represents either the number of sequences represented at a given level, or the number of species that are found beneath the node in the tree. The weighting scheme can be changed using the sunburst controls.

In order to reduce the complexity of the representation, we reduce the number of taxonomic levels that we show. We consider only the following eight major taxonomic levels:

superkingdom
kingdom
phylum
class
order
family
genus
species

Colouring and labels

Segments of the tree are coloured approximately according to their superkingdom. For example, archeal branches are coloured with shades of orange, eukaryotes in shades of purple, etc. The colour assignments are shown under the sunburst controls. Where space allows, the name of the taxonomic level will be written on the arc itself.

As you move your mouse across the sunburst, the current node will be highlighted. In the top section of the controls panel we show a summary of the lineage of the currently highlighed node. If you pause over an arc, a tooltip will be shown, giving the name of the taxonomic level in the title and a summary of the number of sequences and species below that node in the tree.

Anomalies in the taxonomy tree

There are some situations that the sunburst tree cannot easily handle and for which we have work-arounds in place.

Missing taxonomic levels

Some species in the taxonomic tree may not have one or more of the main eight levels that we display. For example, Bos taurus is not assigned an order in the NCBI taxonomic tree. In such cases we mark the omitted level with, for example, "No order", in both the tooltip and the lineage summary.

Unmapped species names

The tree is built by looking at each sequence in the full alignment for the family. We take the name of the species given by UniProt and try to map that to the full taxonomic tree from NCBI. In some cases, the name chosen by UniProt does not map to any node in the NCBI tree, perhaps because the chosen name is listed as a synonym or a misspelling in the NCBI taxonomy.

So that these nodes are not simply omitted from the sunburst tree, we group them together in a separate branch (or segment of the sunburst tree). Since we cannot determine the lineage for these unmapped species, we show all levels between the superkingdom and the species as "uncategorised".

Sub-species

Since we reduce the species tree to only the eight main taxonomic levels, sequences that are mapped to the sub-species level in the tree would not normally be shown. Rather than leave out these species, we map them instead to their parent species. So, for example, for sequences belonging to one of the Vibrio cholerae sub-species in the NCBI taxonomy, we show them instead as belonging to the species Vibrio cholerae.

Too many species/sequences

For large species trees, you may see blank regions in the outer layers of the sunburst. These occur when there are large numbers of arcs to be drawn in a small space. If an arc is less than approximately one pixel wide, it will not be drawn and the space will be left blank. You may still be able to get some information about the species in that region by moving your mouse across the area, but since each arc will be very small, it will be difficult to accurately locate a particular species.

Tree controls

Hide

The tree shows the occurrence of this RNA across different species. More...

Species trees

For the majority of our families we provide an interactive tree representation, which allows you to select specific nodes in the tree and view the selected sequences as an alignment.

Unfortunately we have found that there are problems viewing the interactive tree when the it becomes larger than a certain limit. Furthermore, we have found that Internet Explorer can become unresponsive when viewing some trees, regardless of their size. We therefore show a text representation of the species tree when the size is above a certain limit or if you are using Internet Explorer to view the site.

If you are using IE you can still load the interactive tree by clicking the "Generate interactive tree" button, but please be aware of the potential problems that the interactive species tree can cause.

Interactive tree

For all of the sequence regions (RNA annotations) in a full alignment, we count the total number that are found in the alignment. This total is shown in the purple box.

We also count the number of unique sequences on which each RNA is found, which is shown in green. Note that an RNA annotation may appear multiple times on the same sequence, leading to the difference between these two numbers (think of repeats like tRNA where the same RNA is found in tandem along a single sequence).

Finally, we group sequences from the same organism according to the NCBI code that is assigned by UniProt, allowing us to count the number of distinct sequences on which the RNA is found. This value is shown in the pink boxes.

We use the NCBI species tree to group organisms according to their taxonomy and this forms the structure of the displayed tree. Note that in some cases the trees are too large (have too many nodes) to allow us to build an interactive tree. In these few cases if you do really need to see a representation of the tree for this entry, please contact us and we will be happy to discuss ways to generate it for you.

You can use the tree controls to manipulate how the interactive tree is displayed:

show/hide the summary boxes
highlight species that are represented in the seed alignment
expand/collapse the tree or expand it to a given depth
select a sub-tree or a set of species within the tree and view them graphically or as an alignment
save a plain text representation of the tree

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

Trees

This page displays the predicted phylogenetic tree for the alignment. More...

Note: You can also download the data file for the seed tree.

Motif matches

There are 4 motifs which match this family.

This section shows the Rfam motifs that match sequences within the seed alignment of this family. Users should be aware that the motifs are structural constructs and do not necessarily conform to taxonomic boundaries in the way that Rfam families do. More...

Original order	Motif Accession	Motif Description	Number of Hits	Fraction of Hits	Sum of Bits
7	RM00008	GNRA tetraloop	72	0.335	815.7
7	RM00024	T-loop	28	0.130	312.5
7	RM00029	UNCG tetraloop	25	0.116	386.3
7	RM00030	U-turn motif	36	0.167	434.7

References

This section shows the database cross-references that we have for this Rfam family.

Literature references

Roth A, Weinberg Z, Chen AG, Kim PB, Ames TD, Breaker RR Nat Chem Biol. 2014;10:56-60. A widespread self-cleaving ribozyme class is revealed by bioinformatics. PUBMED:24240507

External database links

Gene Ontology:	GO:0003824 (catalytic activity);
Sequence Ontology:	SO:0000374 (ribozyme);

Curation and family details

This section shows the detailed information about the Rfam family. We're happy to receive updated or improved alignments for new or existing families. Submit your new alignment and we'll take a look.

Curation

Seed source

Published; 24240507;

Structure source

Published; 24240507;

Type

Gene; ribozyme;

Author

Weinberg Z ORCID logo

, Ames TD

Alignment details

Alignment	Number of sequences
full	13
seed	215

Model information

Build commands

cmbuild -F CM SEED

cmcalibrate --mpi CM

Search command

cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 2958934 CM SEQDB

Gathering cutoff

37.6

Trusted cutoff

37.6

Noise cutoff

37.5

Covariance model

Download

Family: Twister-P5 (RF02684)

Description: Type-P5 twister ribozyme

Summary

Clan

Wikipedia annotation Edit Wikipedia article

Before you edit for the first time

Things you should know

How your contribution will be recorded

Information we would like to see added

Does Rfam agree with the content of the Wikipedia entry ?

Contact us

Sequences

Quick actions

Table view (228 sequence regions)

Alignment

Viewing

Downloading

View options

Formatting options

Download

Submit a new alignment

Secondary structure

Acknowledgements

Current Rfam structure

R-scape optimised structure

Species distribution

Sunburst controls

Lineage

Weight segments by...

Change the size of the sunburst

Colour assignments

Selections

Currently selected:

How the sunburst is generated

Colouring and labels

Anomalies in the taxonomy tree

Missing taxonomic levels

Unmapped species names

Sub-species

Too many species/sequences

Tree controls

Annotation

Download tree

Selected sequences

Species trees

Interactive tree

Trees

Motif matches

References

Literature references

External database links

Curation and family details

Curation

Model information

Rfam is part of the ELIXIR infrastructure