#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2break 3 41-42-3
1 IL_2BQ5_0012BQ50.51251RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
2 IL_2ZJR_0762ZJR0.52491Single bulged U (H)X LSU rRNAG2050G2052*C2421C2422cWWcWW
3 IL_1FJG_0361FJG0.42531Single bulged G (H)A SSU rRNAU1390U1391*G925G927cWWcWW
4 IL_2PLY_0012PLY0.63911CRNA (23-mer)C21G22*C25G27cWWcWW
5 IL_1FJG_0431FJG0.48891A SSU rRNAC1195G1197*C1060G1061cWWcWW
6 IL_1R3E_0021R3E0.37313Multiple bulged basesD+ERNA (17-mer)C415C416*G408G412cWWcWW
7 IL_3G78_0153G780.36122AGroup II catalytic intron D1-D4-1U375G378*U365A366cWWcWW
8 IL_2ZJR_0982ZJR0.25143Multiple bulged bases (H)X LSU rRNAA2690G2694*C2674U2675cWWcWW
9 IL_2NOK_0062NOK0.30511D+CRNA (20-mer)G105G107*U61C62cWWcWW
10 IL_2VPL_0052VPL0.24681DFRAGMENT OF MRNA FOR L1-OPERON CONTAINING REGULATOR L1-BINDING SITEG28A30*U16C17cWWcWW
11 IL_2C4Z_0022C4Z0.21391SRNA (19-mer)G5||||P_1G7||||P_1*C14||||P_1C15||||P_1cWWncWW
12 IL_1S72_1041S720.13341Single bulged U (H)9 5S rRNAC95C96*G86G88cWWcWW
13 IL_2NOK_0032NOK0.15591B+ARNA (20-mer)G105G107*U61C62cWWcWW
14 IL_1S03_0061S030.21491Single bulged CB47-MERC39C40*G9G11cWWcWW
15 IL_1JZV_0051JZV0.25201C+DRNA (8-mer) + RNA (9-mer)G24A25*U32C34cWWcWW
16 IL_1S03_0051S030.23191Single bulged UB47-MERA6G8*C41U42cWWcWW
17 IL_2BU1_0012BU10.23971RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
18 IL_2BU1_0022BU10.21921SRNA (19-mer)G5||||P_1G7||||P_1*C14||||P_1C15||||P_1cWWcWW
19 IL_2IZM_0022IZM0.24571SRNA (19-mer)G5||||P_1G7||||P_1*C14||||P_1C15||||P_1cWWncWW
20 IL_3F1H_0983F1H0.18571A23S RRNAC2591G2592*C2601G2603ncWWcWW
21 IL_6MSF_0016MSF0.20111Single bulged ARRNA (14-mer)C2||||P_1C4||||P_1*G12||||P_1G13||||P_1cWWcWW
22 IL_2IZM_0012IZM0.22151RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
23 IL_2IZ9_0012IZ90.20701RRNA (18-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
24 IL_3F1H_0343F1H0.18191A23S RRNAU1159G1160*C994A996cWWcWW
25 IL_1S72_0771S720.23271Single bulged A (H)0 LSU rRNAG2279A2280*U2290C2292cWWcWW
26 IL_2PLY_0022PLY0.24141ERNA (23-mer)C25G27*C21G22cWWcWW
27 IL_1S72_0741S720.18961Single bulged U (H)0 LSU rRNAA2108G2110*C2477U2478cWWcWW
28 IL_2IZ9_0022IZ90.22461SRNA (18-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
29 IL_1S03_0011S030.25131Single bulged UA47-MERA6G8*C41U42cWWcWW
30 IL_2IZN_0022IZN0.24011SRNA (19-mer)C5||||P_1C7||||P_1*G14||||P_1G15||||P_1cWWcWW
31 IL_2C50_0012C500.23031RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
32 IL_2IZN_0012IZN0.19171Single bulged GRRNA (19-mer)C5||||P_1C7||||P_1*G14||||P_1G15||||P_1cWWcWW
33 IL_3D0U_0013D0U0.17721Single bulged CALysine Riboswitch RNAG9G11*C75C76cWWcWW
34 IL_1S72_0221S720.19782Multiple bulged bases (H)0 LSU rRNAC726G727*C699G702cWWcWW
35 IL_2C4Z_0012C4Z0.19691RRNA (19-mer)G5||||P_1G7||||P_1*C14||||P_1C15||||P_1cWWcWW
36 IL_3DIR_0013DIR0.17791ARNA (174-MER)G12G14*C78C79cWWcWW
37 IL_2C50_0022C500.20291SRNA (19-mer)G5||||P_1G7||||P_1*C14||||P_1C15||||P_1cWWncWW
38 IL_2IPY_0012IPY0.13491Cferritin IRE RNAC25G26*U5G7cWWcWW
39 IL_1S72_0931S720.12383Bulged stacked bases (H)0 LSU rRNAA2746G2750*U2732U2733cWWcWW
40 IL_1S03_0021S030.11821Single bulged CA47-MERC39C40*G9G11cWWcWW
41 IL_1I9X_0021I9X0.09791Single bulged AA+BRNA (13-mer)U9A10*U4A6cWWcWW
42 IL_1DQH_0011DQH0.00001Single bulged CA+BRNA (9-mer) + RNA (10-mer)C3A4*U15G17cWWcWW
43 IL_1S72_0401S720.122210 LSU rRNAG1108G1110*C1253C1254cWWcWW
44 IL_2IPY_0042IPY0.15071Dferritin IRE RNAC25G26*U5G7cWWcWW
45 IL_3F1H_0773F1H0.18381A23S RRNAG2067G2069*C2442C2443cWWcWW
46 IL_397D_001397D0.17393Multiple bulged basesA+BRNA (15-mer) + RNA (12-mer)A22G26*C39U40cWWcWW
47 IL_2OZB_0012OZB0.17061Single bulged ACRNA comprising the 5' Stem-Loop RNA of U4snRNAC47G48*U24G26cWWcWW
48 IL_1R3E_0011R3E0.19683Multiple bulged basesE+DRNA (17-mer)C415C416*G408G412cWWcWW
49 IL_2ZJR_0912ZJR0.26472X LSU rRNAC2550G2553*C2491G2492cWWcWW
50 IL_1I9X_0011I9X0.54851Single bulged AB+ARNA (13-mer)U9A10*U4A6cWWcWW
51 IL_3F1H_1033F1H0.56253A23S RRNAA2711G2714*C2695U2696cWWcWW
52 IL_1GID_0021GID0.67401AP4-P6 RNA RIBOZYME DOMAING110G111*C209C211cWWcWW
53 IL_1FJG_0011FJG0.80621Single bulged G (H)A SSU rRNAU552A553*U30A32cWWcWW

3D structures

Complete motif including flanking bases
SequenceCounts
CC*GAG5
GAG*CC4
GUG*CC3
CC*GCG3
AUG*CU3
GCG*CC3
CUG*CG2
CC*GUUCG2
GUG*UC2
GA*UAC2
CGC*GG2
CG*UUG2
UA*UAA2
UU*GGG1
CG*CUG1
UACG*UA1
ACAUG*CU1
GAA*UC1
CC*GUG1
CG*CAG1
CAC*GG1
CCA*UG1
CG*CAUG1
ACGUG*UU1
CA*UCG1
AUCUG*CU1
CG*UAG1
CACG*CG1
CU*AUAAG1
GG*CAC1
UA*UGA1
Non-Watson-Crick part of the motif
SequenceCounts
*A12
U*10
A*6
*U4
*C4
C*4
*G2
*UUC2
AC*2
G*2
CAU*1
*AU1
CGU*1
UCU*1
*UAA1

Release history

Release0.3
Date2011-12-08
StatusNew id, 2 parents

Parent motifs

Parent motifCommon motif instancesOnly in IL_43856.1Only in the parent motif
IL_63653.1
Compare
IL_2NOK_006, IL_2BQ5_001, IL_1I9X_001, IL_2NOK_003, IL_1I9X_002, IL_2BU1_002, IL_2BU1_001, IL_1S72_104, IL_1FJG_001, IL_1S72_077, IL_397D_001, IL_1FJG_043, IL_2C50_002, IL_2C50_001, IL_2PLY_002, IL_2PLY_001, IL_1S72_040, IL_2VPL_005, IL_3D0U_001, IL_2OZB_001, IL_3F1H_077, IL_2IZN_002, IL_2IZN_001, IL_2ZJR_076, IL_2IZM_001, IL_2IZM_002, IL_2IPY_001, IL_1DQH_001, IL_2IPY_004, IL_3F1H_098, IL_1S72_093, IL_1JZV_005, IL_3G78_015, IL_2C4Z_001, IL_3DIR_001, IL_1S72_074, IL_1FJG_036, IL_1GID_002, IL_3F1H_034, IL_1S03_002, IL_1S03_001, IL_1S03_006, IL_1S03_005, IL_1R3E_001, IL_1R3E_002, IL_2ZJR_091, IL_3F1H_103, IL_6MSF_001, IL_2ZJR_098, IL_2IZ9_001, IL_2IZ9_002, IL_2C4Z_002IL_1S72_022IL_2PN4_008, IL_1ET4_008, IL_2ZJR_011, IL_2PN4_003, IL_2ZJR_016, IL_2ZJR_015, IL_1GID_005, IL_3D2V_004, IL_3D2V_001, IL_1S72_042, IL_3F1H_073, IL_2ZJR_065, IL_2IPY_002, IL_2IPY_003, IL_2IPY_006, IL_2IPY_005, IL_2ZJR_002, IL_1GID_009, IL_1ET4_004, IL_1ET4_002, IL_3F1H_066, IL_2ZJR_093, IL_3B31_001, IL_1DUQ_004, IL_3F1H_087, IL_2ZJR_034, IL_1DUQ_006, IL_2ZJR_031, IL_1FJG_040, IL_1S72_064, IL_1GID_012, IL_3F1H_019, IL_3F1H_018, IL_1U9S_006, IL_1U9S_003, IL_1U9S_001, IL_2OIU_003, IL_2OIU_001, IL_2ZJR_024, IL_2PJP_001, IL_1S72_070, IL_3F1H_002, IL_3OWZ_005, IL_3OWZ_001, IL_1S72_002, IL_2BQ5_002, IL_2ZJR_056, IL_1DUQ_002, IL_1MJI_001, IL_1S72_086, IL_1MJI_003, IL_3G78_004, IL_1DUQ_008, IL_1S72_088, IL_3F1H_032, IL_3F1H_037, IL_2GIS_001, IL_3D0U_005, IL_2NZ4_007, IL_2NZ4_004, IL_1KXK_003, IL_1S72_030, IL_1FJG_016, IL_1FJG_014, IL_1S72_096, IL_3DIR_005, IL_1S72_010, IL_3MUR_003, IL_1S72_014, IL_3MUR_004, IL_2ZY6_002, IL_1FJG_005, IL_1FJG_007, IL_1FJG_002, IL_3MEI_001, IL_1S72_027, IL_1S72_026, IL_2VPL_002, IL_1S72_067, IL_3F1H_059, IL_1FJG_035, IL_2QUX_004, IL_2QUX_005, IL_2QUX_006, IL_1JZV_002, IL_2QUX_001, IL_2QUX_002, IL_2QUX_003, IL_1FUF_002, IL_1FUF_003, IL_1F7Y_002, IL_3F1H_046, IL_1CSL_002, IL_2ZJR_072, IL_3HHN_003, IL_3HHN_001
IL_23027.1
Compare
IL_1S72_022IL_2NOK_006, IL_2BQ5_001, IL_1I9X_001, IL_2NOK_003, IL_1I9X_002, IL_2BU1_002, IL_2BU1_001, IL_1S72_104, IL_1FJG_001, IL_1S72_077, IL_397D_001, IL_1FJG_043, IL_2C50_002, IL_2C50_001, IL_2PLY_002, IL_2PLY_001, IL_1S72_040, IL_2VPL_005, IL_3D0U_001, IL_2OZB_001, IL_3F1H_077, IL_2IZN_002, IL_2IZN_001, IL_2ZJR_076, IL_2IZM_001, IL_2IZM_002, IL_2IPY_001, IL_1DQH_001, IL_2IPY_004, IL_3F1H_098, IL_1S72_093, IL_1JZV_005, IL_3G78_015, IL_2C4Z_001, IL_3DIR_001, IL_1S72_074, IL_1FJG_036, IL_1GID_002, IL_3F1H_034, IL_1S03_002, IL_1S03_001, IL_1S03_006, IL_1S03_005, IL_1R3E_001, IL_1R3E_002, IL_2ZJR_091, IL_3F1H_103, IL_6MSF_001, IL_2ZJR_098, IL_2IZ9_001, IL_2IZ9_002, IL_2C4Z_002IL_3F1H_105, IL_1S72_099, IL_3F1H_095, IL_2ZJR_068

Children motifs

Child motifCommon motif instancesOnly in IL_43856.1Only in the child motif
IL_89429.1
Compare
IL_2NOK_006, IL_2BQ5_001, IL_1I9X_001, IL_2NOK_003, IL_2BU1_002, IL_397D_001, IL_1FJG_043, IL_1S72_040, IL_2VPL_005, IL_3D0U_001, IL_3F1H_077, IL_2IZN_002, IL_2IZN_001, IL_2IZM_001, IL_2IZM_002, IL_1S72_093, IL_3G78_015, IL_2C4Z_001, IL_3DIR_001, IL_1S72_074, IL_1S03_001, IL_1S03_005, IL_1R3E_001, IL_1R3E_002, IL_2ZJR_091, IL_6MSF_001, IL_2IZ9_001, IL_2IZ9_002, IL_2ZJR_076IL_1I9X_002, IL_2OZB_001, IL_2BU1_001, IL_1FJG_001, IL_2C50_002, IL_2C50_001, IL_2PLY_002, IL_2PLY_001, IL_1S72_022, IL_2IPY_001, IL_1DQH_001, IL_2IPY_004, IL_1S03_006, IL_3F1H_098, IL_1JZV_005, IL_2C4Z_002, IL_1S72_077, IL_1FJG_036, IL_1GID_002, IL_3F1H_034, IL_1S03_002, IL_1S72_104, IL_3F1H_103, IL_2ZJR_098IL_2BQ5_002, IL_2IPY_003, IL_3F1H_095, IL_2IPY_006, IL_3F1H_018, IL_2ZJR_034, IL_1S72_030, IL_2ZJR_015, IL_1FJG_014, IL_3OWZ_001, IL_1S72_086
IL_96481.1
Compare
IL_1S03_002, IL_2C4Z_002, IL_1S03_006, IL_3F1H_034, IL_2PLY_001, IL_1I9X_002, IL_2BU1_001, IL_1FJG_036, IL_1S72_104, IL_2PLY_002, IL_1JZV_005, IL_1FJG_001, IL_1S72_077, IL_1DQH_001, IL_3F1H_098, IL_2C50_002, IL_1GID_002, IL_2C50_001IL_2NOK_006, IL_2BQ5_001, IL_1I9X_001, IL_2NOK_003, IL_2BU1_002, IL_397D_001, IL_1FJG_043, IL_1S72_040, IL_2VPL_005, IL_3D0U_001, IL_1S72_022, IL_2OZB_001, IL_3F1H_077, IL_2IZN_002, IL_2IZN_001, IL_2IZM_001, IL_2IZM_002, IL_2IPY_001, IL_2IPY_004, IL_1S72_093, IL_3G78_015, IL_2C4Z_001, IL_3DIR_001, IL_1S72_074, IL_1S03_001, IL_1S03_005, IL_1R3E_001, IL_1R3E_002, IL_2ZJR_091, IL_3F1H_103, IL_6MSF_001, IL_2ZJR_098, IL_2IZ9_001, IL_2IZ9_002, IL_2ZJR_076IL_2PN4_008, IL_3D2V_004, IL_1S72_045, IL_3D2V_001, IL_1ET4_008, IL_3MEI_001, IL_2GIS_001, IL_1KXK_001, IL_2PN4_003, IL_2ZJR_031, IL_2VPL_002, IL_1F7Y_002, IL_2ZJR_093, IL_1JZV_002, IL_1GID_009, IL_1FJG_040, IL_1GID_005, IL_1S72_088, IL_1ET4_002, IL_1ET4_004, IL_2ZY6_002
IL_89723.1
Compare
IL_2OZB_001, IL_2IPY_001, IL_2IPY_004, IL_1S72_022IL_2NOK_006, IL_2BQ5_001, IL_1I9X_001, IL_2NOK_003, IL_1I9X_002, IL_2BU1_002, IL_2BU1_001, IL_1FJG_001, IL_1S72_077, IL_397D_001, IL_1FJG_043, IL_2C50_002, IL_2C50_001, IL_2PLY_002, IL_2PLY_001, IL_1S72_040, IL_2VPL_005, IL_3D0U_001, IL_3F1H_077, IL_2IZN_002, IL_2IZN_001, IL_2ZJR_076, IL_2IZM_001, IL_2IZM_002, IL_1DQH_001, IL_1S03_006, IL_1FJG_036, IL_1S72_093, IL_1JZV_005, IL_3G78_015, IL_2C4Z_001, IL_3DIR_001, IL_1S72_074, IL_3F1H_098, IL_1GID_002, IL_3F1H_034, IL_1S03_002, IL_1S03_001, IL_1S72_104, IL_1S03_005, IL_1R3E_001, IL_1R3E_002, IL_2ZJR_091, IL_3F1H_103, IL_6MSF_001, IL_2ZJR_098, IL_2IZ9_001, IL_2IZ9_002, IL_2C4Z_002IL_3F1H_087, IL_1S72_096, IL_1FJG_005, IL_1FJG_007, IL_1MJI_001, IL_1MJI_003, IL_3G78_004, IL_1S72_064, IL_1S72_067, IL_3F1H_032, IL_1S72_042, IL_1U9S_006, IL_3D0U_005, IL_1U9S_003, IL_3F1H_059, IL_2NZ4_007, IL_2NZ4_004, IL_1KXK_003, IL_2QUX_004, IL_1FJG_016, IL_2QUX_006, IL_2QUX_001, IL_2QUX_002, IL_2QUX_003, IL_3B31_001, IL_3DIR_005, IL_1FUF_002, IL_1FUF_003, IL_2QUX_005, IL_1S72_010, IL_3MUR_003, IL_3MUR_004
IL_45564.3
Compare
IL_2ZJR_098, IL_3F1H_103IL_2NOK_006, IL_2BQ5_001, IL_1I9X_001, IL_2NOK_003, IL_1I9X_002, IL_2BU1_002, IL_2BU1_001, IL_1FJG_001, IL_1S72_077, IL_397D_001, IL_1FJG_043, IL_2C50_002, IL_2C50_001, IL_2PLY_002, IL_2PLY_001, IL_1S72_040, IL_2VPL_005, IL_3D0U_001, IL_1S72_022, IL_2OZB_001, IL_3F1H_077, IL_2IZN_002, IL_2IZN_001, IL_2IZM_001, IL_2IZM_002, IL_2IPY_001, IL_1DQH_001, IL_2IPY_004, IL_1S03_006, IL_1FJG_036, IL_1S72_093, IL_1JZV_005, IL_3G78_015, IL_2C4Z_001, IL_3DIR_001, IL_1S72_074, IL_3F1H_098, IL_1GID_002, IL_3F1H_034, IL_1S03_002, IL_1S03_001, IL_1S72_104, IL_1S03_005, IL_1R3E_001, IL_1R3E_002, IL_2ZJR_091, IL_6MSF_001, IL_2ZJR_076, IL_2IZ9_001, IL_2IZ9_002, IL_2C4Z_002IL_1FJG_028, IL_1FJG_024, IL_3F1H_089, IL_1S72_080, IL_3NKB_002, IL_1G1X_002, IL_3F1H_075, IL_2ZJR_083, IL_2ZJR_085, IL_2ZJR_086, IL_2ZJR_089, IL_1XJR_002, IL_3F1H_090, IL_1I6U_001, IL_1I6U_003, IL_1QA6_004, IL_3F1H_008, IL_1QA6_002, IL_1S03_004, IL_1S03_008, IL_2ZJR_074, IL_3OWZ_007, IL_3OWZ_003, IL_3F1H_108
Annotations
  • (30)
  • Single bulged C (4)
  • Single bulged A (4)
  • Multiple bulged bases (3)
  • Single bulged U (H) (3)
  • Single bulged G (H) (2)
  • Single bulged U (2)
  • Multiple bulged bases (H) (2)
  • Single bulged A (H) (1)
  • Bulged stacked bases (H) (1)
  • Single bulged G (1)
  • Basepair signature
    Heat map statistics
    Min 0.07 | Avg 0.34 | Max 1.22
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