Motif IL_06390.2 Version IL_06390.2 of this group appears in releases 1.0 to 1.0
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | break | 4 | 5 | 6 | 1-6 | 2-5 | 3-4 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_3V2F_025 | 3V2F | 0.7766 | 1 | A | 23S Ribosomal RNA | C | 844 | G | 845 | C | 846 | * | G | 931 | A | 933 | G | 934 | cWW | cWW | ||
| 2 | IL_1GID_006 | 1GID | 0.4931 | 5 | A | P4-P6 RNA RIBOZYME DOMAIN | G | 134 | U | 135 | A | 136 | * | U | 182 | A | 187 | C | 189 | cWW | cWH | cWW | |
| 3 | IL_1GID_013 | 1GID | 0.4653 | 5 | B | P4-P6 RNA RIBOZYME DOMAIN | G | 134 | U | 135 | A | 136 | * | U | 182 | A | 187 | C | 189 | cWW | cWH | cWW | |
| 4 | IL_1X8W_005 | 1X8W | 0.4672 | 5 | A | Tetrahymena ribozyme RNA | G | 134 | U | 135 | A | 136 | * | U | 182 | A | 187 | C | 189 | cWW | cWH | cWW | |
| 5 | IL_3U5F_022 | 3U5F | 0.3331 | 0 | 6 | 18S rRNA | U | 406 | A | 407 | C | 408 | * | G | 389 | G | 390 | A | 391 | cWW | cWH | cWW | |
| 6 | IL_420D_001 | 420D | 0.2917 | 0 | B+A | RNA (16-mer) | A | 26 | A | 27 | U | 28 | * | A | 5 | G | 6 | U | 7 | cWW | cWH | cWW | |
| 7 | IL_420D_002 | 420D | 0.3063 | 0 | A+B | RNA (16-mer) | A | 10 | A | 11 | U | 12 | * | A | 21 | G | 22 | U | 23 | cWW | cWH | cWW | |
| 8 | IL_3W3S_003 | 3W3S | 0.2680 | 0 | Isolated cWH basepair | B | Selenocysteine transfer RNA | A | 47|||N | G | 47|||O | C | 47|||P | * | G | 47|||A | G | 47|||B | U | 47|||C | cWW | cWH | cWW |
| 9 | IL_2XXA_011 | 2XXA | 0.4105 | 1 | G | SSRP RNA | A | 19 | G | 20 | C | 21 | * | G | 78 | G | 79 | U | 81 | cWW | cWH | cWW | |
| 10 | IL_2AW7_011 | 2AW7 | 0.2217 | 0 | A | 16S ribosomal RNA | G | 144 | G | 145 | G | 146 | * | C | 176 | G | 177 | C | 178 | cWW | cWH | cWW | |
| 11 | IL_3U5F_044 | 3U5F | 0.2602 | 0 | 6 | 18S rRNA | C | 848 | C | 849 | A | 850 | * | U | 822 | G | 823 | G | 824 | cWW | ncWH | cWW | |
| 12 | IL_3U5F_070 | 3U5F | 0.2419 | 0 | 6 | 18S rRNA | C | 1323 | G | 1324 | A | 1325 | * | U | 1290 | G | 1291 | G | 1292 | cWW | cWH | cWW | |
| 13 | IL_2R22_001 | 2R22 | 0.0685 | 0 | A+B | RNA (13-mer) | U | 6 | G | 7 | A | 8 | * | U | 19 | G | 20 | A | 21 | cWW | cWH | cWW | |
| 14 | IL_3CZW_001 | 3CZW | 0.0000 | 0 | Isolated cWH basepair | X | RNA (16-mer) | U | 10||||2_555 | G | 11||||2_555 | A | 12||||2_555 | * | U | 7 | G | 8 | A | 9 | cWW | cWH | cWW |
| 15 | IL_3CZW_002 | 3CZW | 0.0000 | 0 | Isolated cWH basepair | X | RNA (16-mer) | U | 10 | G | 11 | A | 12 | * | U | 7||||2_555 | G | 8||||2_555 | A | 9||||2_555 | cWW | cWH | cWW |
| 16 | IL_3SJ2_003 | 3SJ2 | 0.1040 | 0 | Isolated cWH basepair | A+B | RNA (19-mer) + RNA (17-mer) | C | 13 | G | 14 | G | 15 | * | C | 7 | G | 8 | G | 9 | cWW | cWH | cWW |
| 17 | IL_3SJ2_002 | 3SJ2 | 0.1145 | 0 | Isolated cWH basepair | B+A | RNA (17-mer) | C | 10 | G | 11 | G | 12 | * | C | 10 | G | 11 | G | 12 | cWW | cWH | cWW |
| 18 | IL_3SJ2_001 | 3SJ2 | 0.1130 | 0 | Isolated cWH basepair | B+A | RNA (17-mer) | C | 13 | G | 14 | G | 15 | * | C | 7 | G | 8 | G | 9 | cWW | cWH | cWW |
| 19 | IL_4E5C_001 | 4E5C | 0.1595 | 0 | Isolated cWH basepair | A+B | RNA (19-mer) | C | 9 | G | 10 | G | 11 | * | C | 9 | G | 10 | G | 11 | cWW | cWH | cWW |
| 20 | IL_3R1D_002 | 3R1D | 0.1863 | 0 | Isolated cWH basepair | B+A | RNA (11-mer) | C | 5 | G | 6 | G | 7 | * | C | 5 | G | 6 | G | 7 | cWW | cWH | cWW |
| 21 | IL_406D_002 | 406D | 0.3467 | 0 | Isolated cWH basepair | A+E | RNA (17-mer) | U | 8||A | G | 9||A | G | 10||A | * | U | 25||A | G | 26||A | G | 27||A | cWW | ncWH | cWW |
| 22 | IL_3U5F_023 | 3U5F | 0.6661 | 0 | 6 | 18S rRNA | C | 411 | A | 412 | U | 413 | * | A | 420 | A | 421 | G | 422 | cWW | cWW | ||
| 23 | IL_3NJ7_001 | 3NJ7 | 0.6688 | 0 | B+A | RNA (10-mer) | C | 6 | A | 7 | G | 8 | * | C | 3 | A | 4 | G | 5 | cWW | cWW | ||
| 24 | IL_2ZJR_029 | 2ZJR | 0.7009 | 0 | X | LSU rRNA | A | 883 | C | 884 | A | 885 | * | U | 917 | A | 918 | U | 919 | cWW | cWW | ||
| 25 | IL_3U5H_151 | 3U5H | 0.9026 | 1 | 8 | 5.8S rRNA | U | 93 | C | 94 | A | 96 | * | U | 64 | A | 65 | A | 66 | cWW | ncSW | cWW | |
| 26 | IL_3U5H_072 | 3U5H | 0.8702 | 2 | 5 | 25S rRNA | U | 1818 | U | 1819 | C | 1822 | * | G | 1623 | G | 1624 | A | 1625 | cWW | ncWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CGG*CGG | 5 |
| GUA*UAAUAAGC | 3 |
| UGA*UGA | 3 |
| AAU*AGU | 2 |
| CGC*GGAG | 1 |
| UAC*GGA | 1 |
| AGC*GGU | 1 |
| AGC*GGGU | 1 |
| GGG*CGC | 1 |
| CCA*UGG | 1 |
| CGA*UGG | 1 |
| UGG*UGG | 1 |
| CAU*AAG | 1 |
| CAG*CAG | 1 |
| ACA*UAU | 1 |
| UCGA*UAA | 1 |
| UUUUC*GGA | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| G*G | 12 |
| U*AAUAAG | 3 |
| A*G | 3 |
| A*A | 2 |
| G*GA | 1 |
| G*GG | 1 |
| C*G | 1 |
| C*A | 1 |
| CG*A | 1 |
| UUU*G | 1 |
Release history
| Release | 1.0 |
|---|---|
| Date | 2013-03-04 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in IL_06390.2 | Only in the parent motif |
|---|---|---|---|
| IL_06390.1 Compare | IL_420D_002, IL_420D_001, IL_2AW7_011, IL_1GID_006, IL_3V2F_025, IL_406D_002, IL_3U5F_044, IL_3R1D_002, IL_1GID_013, IL_3U5F_023, IL_3U5F_022, IL_3NJ7_001, IL_2ZJR_029, IL_4E5C_001, IL_1X8W_005, IL_3U5H_072, IL_3U5F_070, IL_3SJ2_002, IL_3SJ2_003, IL_3SJ2_001, IL_3U5H_151, IL_3CZW_002, IL_3CZW_001, IL_2R22_001, IL_2XXA_011 | IL_3W3S_003 |
Children motifs
| Child motif | Common motif instances | Only in IL_06390.2 | Only in the child motif |
|---|---|---|---|
| IL_06390.3 Compare | IL_420D_002, IL_420D_001, IL_2AW7_011, IL_1GID_006, IL_3V2F_025, IL_406D_002, IL_3U5F_044, IL_3R1D_002, IL_1GID_013, IL_3W3S_003, IL_3U5F_023, IL_3U5F_022, IL_3NJ7_001, IL_4E5C_001, IL_1X8W_005, IL_3U5H_072, IL_3U5F_070, IL_3SJ2_002, IL_3SJ2_003, IL_3SJ2_001, IL_3U5H_151, IL_2R22_001, IL_3CZW_001, IL_3CZW_002, IL_2XXA_011 | IL_2ZJR_029 | IL_4IOA_029 |
- Annotations
-
- Isolated cWH basepair (9)
- Basepair signature
- cWW-cWH-cWW
- Heat map statistics
- Min 0.04 | Avg 0.51 | Max 1.09
Coloring options: