0  structures 94  species 230  sequences

Family: CyVA-1 (RF02965)

Description: CyVA-1 RNA

Summary

Wikipedia annotation Edit Wikipedia article

The Rfam group coordinates the annotation of Rfam families in Wikipedia. This family is described by a Wikipedia entry CyVA-1 RNA motif. More...

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Sequences

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Table view (230 sequence regions)

Original order Download FASTA Accession Bit score Type Start End Description Species View context
0
URS0000D6A925_12908 N/A seed 1 83 unclassified sequences CyVA-1 RNA unclassified sequences  
1
URS0000D671C8_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
2
URS0000D6CB2D_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
3
URS0000D6858E_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
4
URS0000D69E94_373994 N/A seed 1 79 Rivularia sp. PCC 7116 CyVA-1 RNA Rivularia sp. PCC 7116  
5
URS0000D67C7D_234267 N/A seed 1 81 Candidatus Solibacter usitatus Ellin6076 CyVA-1 RNA Candidatus Solibacter usitatus Ellin6076  
6
URS0000D66CC2_12908 N/A seed 1 80 unclassified sequences CyVA-1 RNA unclassified sequences  
7
URS0000D66562_320771 N/A seed 1 76 Pedosphaera parvula Ellin514 CyVA-1 RNA Pedosphaera parvula Ellin514  
8
URS0000D6977E_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
9
URS0000D6777D_102232 N/A seed 1 76 Gloeocapsa sp. PCC 73106 CyVA-1 RNA Gloeocapsa sp. PCC 73106  
10
URS0000D65C8D_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
11
URS0000D6A1CE_128403 N/A seed 1 77 Scytonema hofmanni PCC 7110 CyVA-1 RNA Scytonema hofmanni PCC 7110  
12
URS0000D6680C_1173026 N/A seed 1 77 Gloeocapsa sp. PCC 7428 CyVA-1 RNA Gloeocapsa sp. PCC 7428  
13
URS0000D67EFB_251229 N/A seed 1 77 Chroococcidiopsis thermalis PCC 7203 CyVA-1 RNA Chroococcidiopsis thermalis PCC 7203  
14
URS0000D6699F_65393 N/A seed 1 77 Cyanothece sp. PCC 7424 CyVA-1 RNA Cyanothece sp. PCC 7424  
15
URS0000D69452_497965 N/A seed 1 77 Cyanothece sp. PCC 7822 CyVA-1 RNA Cyanothece sp. PCC 7822  
16
URS0000D6C9A0_313612 N/A seed 1 79 Lyngbya sp. PCC 8106 CyVA-1 RNA Lyngbya sp. PCC 8106  
17
URS0000D68258_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
18
URS0000D68258_1348334 N/A seed 1 79 Lyngbya aestuarii BL J CyVA-1 RNA Lyngbya aestuarii BL J  
19
URS0000D6CFE5_1348334 N/A seed 1 79 Lyngbya aestuarii BL J CyVA-1 RNA Lyngbya aestuarii BL J  
20
URS0000D6CFE5_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
21
URS0000D68A22_28072 N/A seed 1 77 Nostoc sp. PCC 7524 CyVA-1 RNA Nostoc sp. PCC 7524  
22
URS0000D69B88_251229 N/A seed 1 77 Chroococcidiopsis thermalis PCC 7203 CyVA-1 RNA Chroococcidiopsis thermalis PCC 7203  
23
URS0000D6745E_927677 N/A seed 1 77 Synechocystis sp. PCC 7509 CyVA-1 RNA Synechocystis sp. PCC 7509  
24
URS0000D6B93E_1183438 N/A seed 1 77 Gloeobacter kilaueensis JS1 CyVA-1 RNA Gloeobacter kilaueensis JS1  
25
URS0000D66170_1173021 N/A seed 1 77 cyanobacterium PCC 7702 CyVA-1 RNA cyanobacterium PCC 7702  
26
URS0000D674DD_184925 N/A seed 1 77 Chlorogloeopsis sp. PCC 9212 CyVA-1 RNA Chlorogloeopsis sp. PCC 9212  
27
URS0000D6856F_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
28
URS0000D6856F_372787 N/A seed 1 77 Fischerella thermalis CyVA-1 RNA Fischerella thermalis  
29
URS0000D6856F_98439 N/A seed 1 77 Fischerella thermalis PCC 7521 CyVA-1 RNA Fischerella thermalis PCC 7521  
30
URS0000D69F43_306281 N/A seed 1 77 Fischerella muscicola PCC 7414 CyVA-1 RNA Fischerella muscicola PCC 7414  
31
URS0000D67B72_1174528 N/A seed 1 77 Fischerella sp. PCC 9339 CyVA-1 RNA Fischerella sp. PCC 9339  
32
URS0000D68A05_372781 N/A seed 1 77 Fischerella muscicola SAG 1427-1 CyVA-1 RNA Fischerella muscicola SAG 1427-1  
33
URS0000D6B6B2_1173020 N/A seed 1 77 Chamaesiphon minutus PCC 6605 CyVA-1 RNA Chamaesiphon minutus PCC 6605  
34
URS0000D69284_1170562 N/A seed 1 77 Calothrix sp. PCC 6303 CyVA-1 RNA Calothrix sp. PCC 6303  
35
URS0000D6D3BF_1170562 N/A seed 1 77 Calothrix sp. PCC 6303 CyVA-1 RNA Calothrix sp. PCC 6303  
36
URS0000D66FDB_1173020 N/A seed 1 77 Chamaesiphon minutus PCC 6605 CyVA-1 RNA Chamaesiphon minutus PCC 6605  
37
URS0000D69FC2_1385935 N/A seed 1 77 Leptolyngbya sp. Heron Island J CyVA-1 RNA Leptolyngbya sp. Heron Island J  
38
URS0000D65894_111780 N/A seed 1 77 Stanieria cyanosphaera PCC 7437 CyVA-1 RNA Stanieria cyanosphaera PCC 7437  
39
URS0000D6B0C1_118163 N/A seed 1 77 Pleurocapsa sp. PCC 7327 CyVA-1 RNA Pleurocapsa sp. PCC 7327  
40
URS0000D6C2FD_102125 N/A seed 1 78 Xenococcus sp. PCC 7305 CyVA-1 RNA Xenococcus sp. PCC 7305  
41
URS0000D6C7B0_43989 N/A seed 1 77 Cyanothece sp. ATCC 51142 CyVA-1 RNA Cyanothece sp. ATCC 51142  
42
URS0000D669C4_391612 N/A seed 1 77 Cyanothece sp. CCY0110 CyVA-1 RNA Cyanothece sp. CCY0110  
43
URS0000D6BB2C_118161 N/A seed 1 78 Pleurocapsa sp. PCC 7319 CyVA-1 RNA Pleurocapsa sp. PCC 7319  
44
URS0000D697E9_373994 N/A seed 1 79 Rivularia sp. PCC 7116 CyVA-1 RNA Rivularia sp. PCC 7116  
45
URS0000D665CA_373994 N/A seed 1 79 Rivularia sp. PCC 7116 CyVA-1 RNA Rivularia sp. PCC 7116  
46
URS0000D68D78_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
47
URS0000D66407_1173027 N/A seed 1 77 Microcoleus sp. PCC 7113 CyVA-1 RNA Microcoleus sp. PCC 7113  
48
URS0000D6C4E4_111780 N/A seed 1 78 Stanieria cyanosphaera PCC 7437 CyVA-1 RNA Stanieria cyanosphaera PCC 7437  
49
URS0000D69E90_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
50
URS0000D66B9E_118168 N/A seed 1 79 Microcoleus chthonoplastes PCC 7420 CyVA-1 RNA Microcoleus chthonoplastes PCC 7420  
51
URS0000D66635_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
52
URS0000D6A309_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
53
URS0000D68885_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
54
URS0000D69E02_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
55
URS0000D6B000_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
56
URS0000D69C09_12908 N/A seed 1 81 unclassified sequences CyVA-1 RNA unclassified sequences  
57
URS0000D6BABE_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
58
URS0000D6BA6F_12908 N/A seed 1 75 unclassified sequences CyVA-1 RNA unclassified sequences  
59
URS0000D68098_1173027 N/A seed 1 77 Microcoleus sp. PCC 7113 CyVA-1 RNA Microcoleus sp. PCC 7113  
60
URS0000D69FEC_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
61
URS0000D6B218_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
62
URS0000D66DDD_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
63
URS0000D6B4F0_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
64
URS0000D661BB_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
65
URS0000D6A4F8_12908 N/A seed 1 76 unclassified sequences CyVA-1 RNA unclassified sequences  
66
URS0000D69529_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
67
URS0000D6D165_1173020 N/A seed 1 77 Chamaesiphon minutus PCC 6605 CyVA-1 RNA Chamaesiphon minutus PCC 6605  
68
URS0000D6C6E7_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
69
URS0000D661C8_1385935 N/A seed 1 77 Leptolyngbya sp. Heron Island J CyVA-1 RNA Leptolyngbya sp. Heron Island J  
70
URS0000D67C9C_102129 N/A seed 1 77 Leptolyngbya sp. PCC 7375 CyVA-1 RNA Leptolyngbya sp. PCC 7375  
71
URS0000D6850F_184925 N/A seed 1 78 Chlorogloeopsis sp. PCC 9212 CyVA-1 RNA Chlorogloeopsis sp. PCC 9212  
72
URS0000D6D38A_1174528 N/A seed 1 79 Fischerella sp. PCC 9339 CyVA-1 RNA Fischerella sp. PCC 9339  
73
URS0000D67C7B_372781 N/A seed 1 78 Fischerella muscicola SAG 1427-1 CyVA-1 RNA Fischerella muscicola SAG 1427-1  
74
URS0000D6782B_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
75
URS0000D65ACF_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
76
URS0000D666B9_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
77
URS0000D66A9B_12908 N/A seed 1 76 unclassified sequences CyVA-1 RNA unclassified sequences  
78
URS0000D6CD45_12908 N/A seed 1 76 unclassified sequences CyVA-1 RNA unclassified sequences  
79
URS0000D6C8B0_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
80
URS0000D6B251_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
81
URS0000D69516_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
82
URS0000D6751F_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
83
URS0000D6B3A3_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
84
URS0000D6B563_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
85
URS0000D69F8F_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
86
URS0000D6A152_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
87
URS0000D6862C_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
88
URS0000D69D25_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
89
URS0000D6810B_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
90
URS0000D6A8E1_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
91
URS0000D6698E_12908 N/A seed 1 76 unclassified sequences CyVA-1 RNA unclassified sequences  
92
URS0000D662D7_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
93
URS0000D6998E_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
94
URS0000D6B216_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
95
URS0000D67EDE_12908 N/A seed 1 77 unclassified sequences CyVA-1 RNA unclassified sequences  
96
URS0000D6C2C9_12908 N/A seed 1 81 unclassified sequences CyVA-1 RNA unclassified sequences  
97
URS0000D676FD_195250 N/A seed 1 78 Synechococcus sp. PCC 7336 CyVA-1 RNA Synechococcus sp. PCC 7336  
98
URS0000D668D3_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
99
URS0000D684EF_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
100
URS0000D68574_1183438 N/A seed 1 78 Gloeobacter kilaueensis JS1 CyVA-1 RNA Gloeobacter kilaueensis JS1  
101
URS0000D69CC6_582515 N/A seed 1 75 Rubidibacter lacunae KORDI 51-2 CyVA-1 RNA Rubidibacter lacunae KORDI 51-2  
102
URS0000D69007_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
103
URS0000D6D127_12908 N/A seed 1 79 unclassified sequences CyVA-1 RNA unclassified sequences  
104
URS0000D6AB27_98439 N/A seed 1 78 Fischerella thermalis PCC 7521 CyVA-1 RNA Fischerella thermalis PCC 7521  
105
URS0000D6AB27_372787 N/A seed 1 78 Fischerella thermalis CyVA-1 RNA Fischerella thermalis  
106
URS0000D6AB27_306281 N/A seed 1 78 Fischerella muscicola PCC 7414 CyVA-1 RNA Fischerella muscicola PCC 7414  
107
URS0000D6C993_372781 N/A seed 1 78 Fischerella muscicola SAG 1427-1 CyVA-1 RNA Fischerella muscicola SAG 1427-1  
108
URS0000D6A74F_1174528 N/A seed 1 78 Fischerella sp. PCC 9339 CyVA-1 RNA Fischerella sp. PCC 9339  
109
URS0000D68314_927677 N/A seed 1 78 Synechocystis sp. PCC 7509 CyVA-1 RNA Synechocystis sp. PCC 7509  
110
URS0000D68BA2_1173025 N/A seed 1 79 Geitlerinema sp. PCC 7407 CyVA-1 RNA Geitlerinema sp. PCC 7407  
111
URS0000D6837D_179408 N/A seed 1 78 Oscillatoria sp. PCC 7112 CyVA-1 RNA Oscillatoria sp. PCC 7112  
112
URS0000D6872D_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
113
URS0000D6911E_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
114
URS0000D66D24_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
115
URS0000D6D237_12908 N/A seed 1 80 unclassified sequences CyVA-1 RNA unclassified sequences  
116
URS0000D679D0_251229 N/A seed 1 78 Chroococcidiopsis thermalis PCC 7203 CyVA-1 RNA Chroococcidiopsis thermalis PCC 7203  
117
URS0000D68C56_102232 N/A seed 1 77 Gloeocapsa sp. PCC 73106 CyVA-1 RNA Gloeocapsa sp. PCC 73106  
118
URS0000D6B806_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
119
URS0000D6B806_1348334 N/A seed 1 78 Lyngbya aestuarii BL J CyVA-1 RNA Lyngbya aestuarii BL J  
120
URS0000D6759D_313612 N/A seed 1 78 Lyngbya sp. PCC 8106 CyVA-1 RNA Lyngbya sp. PCC 8106  
121
URS0000D6B2A0_12908 N/A seed 1 78 unclassified sequences CyVA-1 RNA unclassified sequences  
122
URS0000D665B5_12908 N/A seed 1 76 unclassified sequences CyVA-1 RNA unclassified sequences  
0
CP000806.1 86.00 full 1,819,079 1,819,155 Cyanothece sp. ATCC 51142 circular chromosome, complete sequence. Cyanothece sp. ATCC 51142 ENA graphic
1
RSCJ01000004.1 85.20 full 248,543 248,619 RSCJ01000004.1 Chlorogloeopsis fritschii PCC 6912 sequence04, whole genome shotgun sequence Chlorogloeopsis fritschii PCC 6912 ENA graphic
2
CP003610.1 84.70 full 404,500 404,424 Calothrix sp. PCC 6303, complete genome. Calothrix sp. PCC 6303 ENA graphic
3
JACXAE010000126.1 84.10 full 90,174 90,250 JACXAE010000126.1 Iningainema tapete BLCC-T55 NODE_8_length_281259_cov_25.474348, whole genome shotgun sequence Iningainema tapete BLCC-T55 ENA graphic
4
JADEWY010000004.1 83.70 full 10,524 10,448 JADEWY010000004.1 Coleofasciculus sp. LEGE 07092 NODE_26_length_88103_cov_12.6592, whole genome shotgun sequence Coleofasciculus sp. LEGE 07092 ENA graphic
5
JACYLO010000094.1 83.50 full 148,508 148,584 JACYLO010000094.1 MAG: Elainella sp. C42_A2020_010 NODE_161_length_255197_cov_185.022870, whole genome shotgun sequence Elainella sp. C42_A2020_010 ENA graphic
6
LATL02000227.1 83.40 full 2,861 2,783 Limnoraphis robusta CS-951 contig227, whole genome shotgun sequence. Limnoraphis robusta CS-951 ENA graphic
7
CP019636.1 83.20 full 695,595 695,519 CP019636.1 Nostocales cyanobacterium HT-58-2 chromosome, complete sequence Nostocales cyanobacterium HT-58-2 ENA graphic
8
JAECZC010000007.1 82.60 full 233,569 233,493 JAECZC010000007.1 Amazonocrinis nigriterrae CENA67 scaffold7, whole genome shotgun sequence Amazonocrinis nigriterrae CENA67 ENA graphic
9
JAHHIF010000003.1 81.90 full 13,831 13,755 JAHHIF010000003.1 MAG: Symplocastrum torsivum CPER-KK1 scaffold_47_c1, whole genome shotgun sequence Phormidiaceae cyanobacterium CPER-KK1 ENA graphic
10
CP003630.1 81.80 full 1,764,911 1,764,835 Microcoleus sp. PCC 7113, complete genome. Microcoleus sp. PCC 7113 ENA graphic
11
AWNH01000017.1 81.50 full 27,053 27,129 Leptolyngbya sp. Heron Island J, whole genome shotgun sequence. Leptolyngbya sp. Heron Island J ENA graphic
12
JADEWO010000025.1 81.30 full 15,947 15,871 JADEWO010000025.1 Oculatella sp. LEGE 06141 NODE_25_length_91807_cov_10.7806, whole genome shotgun sequence Oculatella sp. LEGE 06141 ENA graphic
13
JAECZC010000002.1 80.60 full 161,102 161,178 JAECZC010000002.1 Amazonocrinis nigriterrae CENA67 scaffold2, whole genome shotgun sequence Amazonocrinis nigriterrae CENA67 ENA graphic
14
CP003600.1 80.50 full 2,328,698 2,328,622 Chamaesiphon minutus PCC 6605, complete genome. Chamaesiphon minutus PCC 6605 ENA graphic
15
AP018254.1 80.40 full 5,762,371 5,762,447 AP018254.1 Calothrix sp. NIES-3974 DNA, complete genome Calothrix sp. NIES-3974 ENA graphic
16
JADEXP010000144.1 80.40 full 8,417 8,341 JADEXP010000144.1 Leptolyngbya cf. ectocarpi LEGE 11479 NODE_268_length_14903_cov_4.01123_(reversed), whole genome shotgun sequence Leptolyngbya cf. ectocarpi LEGE 11479 ENA graphic
17
JAHHIF010000021.1 80.30 full 23,344 23,420 JAHHIF010000021.1 MAG: Symplocastrum torsivum CPER-KK1 scaffold_124_c1, whole genome shotgun sequence Phormidiaceae cyanobacterium CPER-KK1 ENA graphic
18
CP003597.1 80.20 full 2,404,501 2,404,425 Chroococcidiopsis thermalis PCC 7203, complete genome. Chroococcidiopsis thermalis PCC 7203 ENA graphic
19
CP003610.1 80.10 full 405,226 405,150 Calothrix sp. PCC 6303, complete genome. Calothrix sp. PCC 6303 ENA graphic
20
JADEXR010000126.1 80.10 full 11,989 11,913 JADEXR010000126.1 Aff. Roholtiella sp. LEGE 12411 NODE_174_length_17278_cov_28.109148, whole genome shotgun sequence aff. Roholtiella sp. LEGE 12411 ENA graphic
21
CP001291.1 80.00 full 4,406,315 4,406,239 Cyanothece sp. PCC 7424, complete genome. Cyanothece sp. PCC 7424 ENA graphic
22
JADEWQ010000018.1 80.00 full 64,816 64,892 JADEWQ010000018.1 Pleurocapsales cyanobacterium LEGE 06147 NODE_75_length_6, whole genome shotgun sequence Pleurocapsales cyanobacterium LEGE 06147 ENA graphic
23
CP003552.1 79.60 full 4,519,213 4,519,289 Nostoc sp. PCC 7524, complete genome. Nostoc sp. PCC 7524 ENA graphic
24
CP003653.1 79.50 full 4,738,064 4,737,988 Stanieria cyanosphaera PCC 7437, complete genome. Stanieria cyanosphaera PCC 7437 ENA graphic
25
KQ976354.1 79.50 full 3,600,383 3,600,307 Scytonema hofmannii PCC 7110 genomic scaffold Scaffold1, whole genome shotgun sequence. Scytonema hofmanni PCC 7110 ENA graphic
26
MJGC01000066.1 79.50 full 1,281 1,205 Desertifilum sp. IPPAS B-1220 NODE_3_length_228677_cov_34.2432, whole genome shotgun sequence. Desertifilum sp. IPPAS B-1220 ENA graphic
27
CP002198.1 79.40 full 3,351,812 3,351,736 Cyanothece sp. PCC 7822, complete genome. Cyanothece sp. PCC 7822 ENA graphic
28
CP003587.1 79.30 full 789,282 789,358 Gloeobacter kilaueensis JS1, complete genome. Gloeobacter kilaueensis JS1 ENA graphic
29
PXOH01000029.1 79.00 full 27,177 27,253 PXOH01000029.1 Aphanothece hegewaldii CCALA 016 NODE_98_length_54879_cov_70.4276_ID_75079, whole genome shotgun sequence Aphanothece hegewaldii CCALA 016 ENA graphic
30
JAHHGZ010000012.1 78.90 full 128,295 128,371 JAHHGZ010000012.1 MAG: Cyanomargarita calcarea GSE-NOS-MK-12-04C scaffold_30_c1, whole genome shotgun sequence Cyanomargarita calcarea GSE-NOS-MK-12-04C ENA graphic
31
AWNH01000030.1 78.90 full 9,912 9,988 Leptolyngbya sp. Heron Island J, whole genome shotgun sequence. Leptolyngbya sp. Heron Island J ENA graphic
32
JAHHHV010000067.1 78.80 full 112,385 112,308 JAHHHV010000067.1 MAG: Pegethrix bostrychoides GSE-TBD4-15B scaffold_54_c1, whole genome shotgun sequence Pegethrix bostrychoides GSE-TBD4-15B ENA graphic
33
DS989855.1 78.60 full 118,157 118,079 Microcoleus chthonoplastes PCC 7420 scf_1103659003821 genomic scaffold, whole genome shotgun sequence. Microcoleus chthonoplastes PCC 7420 ENA graphic
34
CP003590.1 78.50 full 4,373,225 4,373,149 Pleurocapsa sp. PCC 7327, complete genome. Pleurocapsa sp. PCC 7327 ENA graphic
35
LXQD01000303.1 78.40 full 42,123 42,200 LXQD01000303.1 Nostoc minutum NIES-26 scaffold47.1, whole genome shotgun sequence Nostoc minutum NIES-26 ENA graphic
36
MRCE01000041.1 78.40 full 11,474 11,550 Phormidium ambiguum IAM M-71 NIES-2119_Scaffold_41, whole genome shotgun sequence. Phormidium ambiguum IAM M-71 ENA graphic
37
JACYLO010000033.1 78.30 full 10,431 10,507 JACYLO010000033.1 MAG: Elainella sp. C42_A2020_010 NODE_3058_length_25705_cov_183.445029, whole genome shotgun sequence Elainella sp. C42_A2020_010 ENA graphic
38
CP003597.1 78.20 full 104,057 104,133 Chroococcidiopsis thermalis PCC 7203, complete genome. Chroococcidiopsis thermalis PCC 7203 ENA graphic
39
AP018281.1 76.40 full 350,747 350,824 AP018281.1 Chondrocystis sp. NIES-4102 DNA, complete genome Chondrocystis sp. NIES-4102 ENA graphic
40
MTAV01000098.1 76.30 full 5,895 5,819 MTAV01000098.1 Nostoc sp. T09 NODE_151_length_31729_cov_113.404366, whole genome shotgun sequence Nostoc sp. T09 ENA graphic
41
JACYLU010000038.1 75.80 full 250,939 251,015 JACYLU010000038.1 MAG: Synechococcales cyanobacterium C42_A2020_086 NODE_148_length_274475_cov_83.231568, whole genome shotgun sequence Synechococcales cyanobacterium C42_A2020_086 ENA graphic
42
JADEXK010000036.1 75.60 full 14,625 14,549 JADEXK010000036.1 Nostocales cyanobacterium LEGE 11386 NODE_65_length_60521_cov_13.0031, whole genome shotgun sequence Nostocales cyanobacterium LEGE 11386 ENA graphic
43
CP003597.1 75.30 full 68,365 68,442 Chroococcidiopsis thermalis PCC 7203, complete genome. Chroococcidiopsis thermalis PCC 7203 ENA graphic
44
JADEWL010000166.1 75.30 full 4,025 4,103 JADEWL010000166.1 Plectonema cf. radiosum LEGE 06105 NODE_473_length_13455_cov_13.9799, whole genome shotgun sequence Plectonema cf. radiosum LEGE 06105 ENA graphic
45
JADEWY010000183.1 75.30 full 2,024 1,948 JADEWY010000183.1 Coleofasciculus sp. LEGE 07092 NODE_383_length_10454_cov_9.70882, whole genome shotgun sequence Coleofasciculus sp. LEGE 07092 ENA graphic
46
JADEWX010000124.1 75.30 full 5,832 5,908 JADEWX010000124.1 Nodosilinea sp. LEGE 07088 NODE_222_length_19193_cov_42.9095, whole genome shotgun sequence Nodosilinea sp. LEGE 07088 ENA graphic
47
AAVU01000013.1 75.10 full 3,261 3,339 Lyngbya sp. PCC 8106 1099428180538, whole genome shotgun sequence. Lyngbya sp. PCC 8106 ENA graphic
48
JACYLU010000002.1 74.90 full 19,350 19,427 JACYLU010000002.1 MAG: Synechococcales cyanobacterium C42_A2020_086 NODE_48_length_472145_cov_82.580372, whole genome shotgun sequence Synechococcales cyanobacterium C42_A2020_086 ENA graphic
49
LN889813.1 74.90 full 503,243 503,321 Planktothrix tepida PCC 9214 isolate BBR_PRJEB10993 genome assembly, scaffold: BBR_B_PL9214_scaffold57 Planktothrix sp. PCC 9214 ENA graphic
50
CP003600.1 74.80 full 2,521,015 2,521,091 Chamaesiphon minutus PCC 6605, complete genome. Chamaesiphon minutus PCC 6605 ENA graphic
51
JACJSL010000118.1 74.80 full 10,057 10,133 JACJSL010000118.1 Coleofasciculus sp. FACHB-SPT36 contig118, whole genome shotgun sequence Coleofasciculus sp. FACHB-SPT36 ENA graphic
52
AGIZ01000002.1 74.50 full 169,416 169,492 Fischerella sp. JSC-11 ctg116, whole genome shotgun sequence. Fischerella sp. JSC-11 ENA graphic
53
JADEWQ010000116.1 74.50 full 16,750 16,674 JADEWQ010000116.1 Pleurocapsales cyanobacterium LEGE 06147 NODE_295_length_, whole genome shotgun sequence Pleurocapsales cyanobacterium LEGE 06147 ENA graphic
54
CP003630.1 74.00 full 1,949,242 1,949,318 Microcoleus sp. PCC 7113, complete genome. Microcoleus sp. PCC 7113 ENA graphic
55
CP003600.1 73.80 full 5,942,125 5,942,201 Chamaesiphon minutus PCC 6605, complete genome. Chamaesiphon minutus PCC 6605 ENA graphic
56
JAECZB010000113.1 73.60 full 96,826 96,902 JAECZB010000113.1 Atlanticothrix silvestris CENA357 scaffold167, whole genome shotgun sequence Atlanticothrix silvestris CENA357 ENA graphic
57
CP024785.1 73.60 full 1,523,137 1,523,061 CP024785.1 Nostoc flagelliforme CCNUN1 chromosome, complete genome Nostoc flagelliforme CCNUN1 ENA graphic
58
ALVZ01000226.1 72.00 full 31,340 31,263 Xenococcus sp. PCC 7305 scaffold_00226, whole genome shotgun sequence. Xenococcus sp. PCC 7305 ENA graphic
59
CP003549.1 72.00 full 6,731,648 6,731,570 Rivularia sp. PCC 7116, complete genome. Rivularia sp. PCC 7116 ENA graphic
60
ALVY01000216.1 71.50 full 47,777 47,702 Gloeocapsa sp. PCC 73106 scaffold_00216, whole genome shotgun sequence. Gloeocapsa sp. PCC 73106 ENA graphic
61
CP003549.1 71.50 full 6,731,953 6,731,875 Rivularia sp. PCC 7116, complete genome. Rivularia sp. PCC 7116 ENA graphic
62
AGIZ01000010.1 71.00 full 69,679 69,756 Fischerella sp. JSC-11 ctg109, whole genome shotgun sequence. Fischerella sp. JSC-11 ENA graphic
63
NSHF01000024.1 70.90 full 15,845 15,769 NSHF01000024.1 Nostoc sp. 'Peltigera malacea cyanobiont' DB3992 scaffold24, whole genome shotgun sequence Nostoc sp. 'Peltigera malacea cyanobiont' DB3992 ENA graphic
64
PVWK01000055.1 70.60 full 5,412 5,336 PVWK01000055.1 Stenomitos frigidus ULC18 145, whole genome shotgun sequence Stenomitos frigidus ULC18 ENA graphic
65
CP003653.1 69.90 full 218,597 218,520 Stanieria cyanosphaera PCC 7437, complete genome. Stanieria cyanosphaera PCC 7437 ENA graphic
66
JACJOM010000126.1 69.80 full 172,235 172,312 JACJOM010000126.1 Trichocoleus sp. FACHB-832 contig126, whole genome shotgun sequence Trichocoleus sp. FACHB-832 ENA graphic
67
LMTZ01000013.1 69.60 full 152,177 152,254 Mastigocoleus testarum BC008 Contig-11, whole genome shotgun sequence. Mastigocoleus testarum BC008 ENA graphic
68
LMTZ01000086.1 69.60 full 7,954 7,877 Mastigocoleus testarum BC008 Contig-20, whole genome shotgun sequence. Mastigocoleus testarum BC008 ENA graphic
69
JYON01000035.1 68.60 full 50,685 50,608 Chroococcales cyanobacterium CENA595 contig_301, whole genome shotgun sequence. Aliterella atlantica CENA595 ENA graphic
70
AAVU01000001.1 68.00 full 253,864 253,787 Lyngbya sp. PCC 8106 1099428180515, whole genome shotgun sequence. Lyngbya sp. PCC 8106 ENA graphic
71
JADEXJ010000014.1 67.50 full 129 51 JADEXJ010000014.1 Pleurocapsales cyanobacterium LEGE 10410 NODE_14_length_63438_cov_3.64145, whole genome shotgun sequence Pleurocapsales cyanobacterium LEGE 10410 ENA graphic
72
CP003549.1 67.50 full 8,174,924 8,174,846 Rivularia sp. PCC 7116, complete genome. Rivularia sp. PCC 7116 ENA graphic
73
JADEXJ010000014.1 67.40 full 340 262 JADEXJ010000014.1 Pleurocapsales cyanobacterium LEGE 10410 NODE_14_length_63438_cov_3.64145, whole genome shotgun sequence Pleurocapsales cyanobacterium LEGE 10410 ENA graphic
74
PVWF01000007.1 67.40 full 146 224 PVWF01000007.1 Pleurocapsa sp. CCALA 161 NODE_9_length_85339_cov_10.449_ID_68675, whole genome shotgun sequence Pleurocapsa sp. CCALA 161 ENA graphic
75
CP003591.1 67.20 full 3,318,171 3,318,093 Geitlerinema sp. PCC 7407, complete genome. Geitlerinema sp. PCC 7407 ENA graphic
76
LR214134.1 66.20 full 2,545 2,621 LR214134.1 Hyella patelloides LEGE 07179 genome assembly, scaffold: H1P_scaffold369, whole genome shotgun sequence Hyella sp. LEGE 07179 ENA graphic
77
CP003646.1 65.30 full 1,711,326 1,711,402 Gloeocapsa sp. PCC 7428, complete genome. Gloeocapsa sp. PCC 7428 ENA graphic
78
PYEQ01000248.1 65.20 full 1,529 1,452 PYEQ01000248.1 Filamentous cyanobacterium CCP5 NODE_818_length_6830_cov_3.17222_ID_102735, whole genome shotgun sequence filamentous cyanobacterium CCP5 ENA graphic
79
CP003587.1 64.60 full 2,693,489 2,693,412 Gloeobacter kilaueensis JS1, complete genome. Gloeobacter kilaueensis JS1 ENA graphic
80
PVWJ01000068.1 61.20 full 3,024 3,100 PVWJ01000068.1 Merismopedia glauca CCAP 1448/3 NODE_201_length_28646_cov_6.71165_ID_39038, whole genome shotgun sequence Merismopedia glauca CCAP 1448/3 ENA graphic
81
CP021983.2 60.90 full 1,028,454 1,028,377 CP021983.2 Halomicronema hongdechloris C2206 genome Halomicronema hongdechloris C2206 ENA graphic
82
CP003614.1 59.40 full 944,657 944,734 Oscillatoria nigro-viridis PCC 7112, complete genome. Oscillatoria sp. PCC 7112 ENA graphic
83
ABOX02000003.1 59.10 full 49,499 49,574 Pedosphaera parvula Ellin514 ctg197, whole genome shotgun sequence. Pedosphaera parvula Ellin514 ENA graphic
84
ALVY01000071.1 58.80 full 313 389 Gloeocapsa sp. PCC 73106 scaffold_00071, whole genome shotgun sequence. Gloeocapsa sp. PCC 73106 ENA graphic
85
JACMKO010000471.1 58.30 full 2,420 2,496 JACMKO010000471.1 MAG: Leptolyngbya sp. ES-bin-22 ES-bin-22-contig-k141_11116854, whole genome shotgun sequence Leptolyngbya sp. ES-bin-22 ENA graphic
86
JACJPL010000020.1 57.40 full 56,029 56,105 JACJPL010000020.1 Leptolyngbya sp. FACHB-261 contig20, whole genome shotgun sequence Leptolyngbya sp. FACHB-261 ENA graphic
87
LATL02000342.1 57.40 full 13,186 13,262 Limnoraphis robusta CS-951 contig342, whole genome shotgun sequence. Limnoraphis robusta CS-951 ENA graphic
88
CP051167.1 55.90 full 3,482,557 3,482,475 CP051167.1 Oxynema aestuarii AP17 chromosome, complete genome Oxynema aestuarii AP17 ENA graphic
89
PVWN01000009.1 54.90 full 117,630 117,553 PVWN01000009.1 Chlorogloea sp. CCALA 695 NODE_10_length_132334_cov_8.97988_ID_63280, whole genome shotgun sequence Chlorogloea sp. CCALA 695 ENA graphic
90
RSCJ01000016.1 53.60 full 106,307 106,384 RSCJ01000016.1 Chlorogloeopsis fritschii PCC 6912 sequence16, whole genome shotgun sequence Chlorogloeopsis fritschii PCC 6912 ENA graphic
91
PVWK01000098.1 53.20 full 93,062 92,986 PVWK01000098.1 Stenomitos frigidus ULC18 62, whole genome shotgun sequence Stenomitos frigidus ULC18 ENA graphic
92
CP042326.1 52.80 full 1,387,769 1,387,847 CP042326.1 Euhalothece natronophila Z-M001 chromosome, complete genome Euhalothece natronophila Z-M001 ENA graphic
93
PVWI01000046.1 52.50 full 5,949 6,026 PVWI01000046.1 Filamentous cyanobacterium Phorm 6 NODE_50_length_29121_cov_5.83491_ID_62762, whole genome shotgun sequence filamentous cyanobacterium Phorm 6 ENA graphic
94
JACJPW010000020.1 52.50 full 67,786 67,709 JACJPW010000020.1 Aerosakkonema funiforme FACHB-1375 contig20, whole genome shotgun sequence Aerosakkonema funiforme FACHB-1375 ENA graphic
95
ASSJ01000055.1 52.20 full 28,947 29,021 Rubidibacter lacunae KORDI 51-2 KR51_contig00085, whole genome shotgun sequence. Rubidibacter lacunae KORDI 51-2 ENA graphic
96
JACMKL010000132.1 51.80 full 4,366 4,443 JACMKL010000132.1 MAG: Candidatus Melainabacteria bacterium isolate ES-bin-223 ES-bin-223-contig-k141_1889988, whole genome shotgun sequence Candidatus Melainabacteria bacterium ENA graphic
97
JACJPL010000026.1 51.70 full 532,984 533,060 JACJPL010000026.1 Leptolyngbya sp. FACHB-261 contig26, whole genome shotgun sequence Leptolyngbya sp. FACHB-261 ENA graphic
98
WVIC01000034.1 51.60 full 10,581 10,504 WVIC01000034.1 Petrachloros mirabilis ULC683 NODE_438_length_46136_cov_122.125171, whole genome shotgun sequence Petrachloros mirabilis ULC683 ENA graphic
99
CP030840.1 49.20 full 6,385,646 6,385,720 CP030840.1 Acidisarcina polymorpha strain SBC82 chromosome, complete genome Acidisarcina polymorpha ENA graphic
100
CP000360.1 48.00 full 3,248,850 3,248,928 Candidatus Koribacter versatilis Ellin345, complete genome. Candidatus Koribacter versatilis Ellin345 ENA graphic
101
JACJSL010000003.1 46.80 full 38,914 38,837 JACJSL010000003.1 Coleofasciculus sp. FACHB-SPT36 contig3, whole genome shotgun sequence Coleofasciculus sp. FACHB-SPT36 ENA graphic
102
CP011382.1 44.60 full 4,505,975 4,505,875 Calothrix sp. 336/3, complete genome. Calothrix sp. 336/3 ENA graphic
103
CP003587.1 44.50 full 2,695,982 2,695,902 Gloeobacter kilaueensis JS1, complete genome. Gloeobacter kilaueensis JS1 ENA graphic
104
BMES01000001.1 44.40 full 9,787 9,708 BMES01000001.1 Alsobacter metallidurans CGMCC 1.12214 DNA, sequence1, whole genome shotgun sequence alpha proteobacterium SK200a-9 ENA graphic
105
PVZS01000011.1 44.20 full 119,633 119,712 PVZS01000011.1 Alsobacter soli strain SH9 scaffold11, whole genome shotgun sequence Alsobacter soli ENA graphic
106
FOZL01000002.1 41.90 full 675,140 675,062 FOZL01000002.1 Granulicella pectinivorans strain DSM 21001 genome assembly, contig: Ga0111653_12, whole genome shotgun sequence Granulicella pectinivorans ENA graphic

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.

Viewer:

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".

Alignment format:
Download/view:

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...

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

18 out of 18 basepairs are significant at E-value=0.05

R Y Y R R R R U U U R C Y G Y U Y Y Y R Y R Y Y G A A G R A G A R C G R Y G Y C A R R Y R A Y R R Y 5'

R-scape optimised structure

18 out of 24 basepairs are significant at E-value=0.05

R Y Y R R R R U U U R C Y G Y U Y Y Y R Y R Y Y G A A G R A G A R C G R Y G Y C A R R Y R A Y R R Y 5'
  • 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.

Species distribution

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Lineage

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Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence 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...

Tree controls

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

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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...

This tree was built using the fasttree method.

Label the trees using or

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

Motif matches

There are 1 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 Image
7 RM00008 GNRA tetraloop 33 0.268 310.0 Match Image

References

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

Literature references

  1. Weinberg Z, Lunse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR, Sherlock ME, Breaker RR Nucleic Acids Res. 2017;45:10811-10823. Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions. PUBMED:28977401

External database links

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 Weinberg Z
Structure source Published; PMID:28977401;
Type Gene; sRNA;
Author Weinberg ZORCID logo
Alignment details
Alignment Number of
sequences
full 107
seed 123

Model information

Build commands
cmbuild -F CM SEED
cmcalibrate --mpi CM
Search command
cmsearch --cpu 4 --verbose --nohmmonly -T 24.26 -Z 2958934 CM SEQDB
Gathering cutoff 41.4
Trusted cutoff 41.9
Noise cutoff 41.1
Covariance model Download
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