Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Collections of regulogs classified by RNA regulatory elements

Each RNA family collection organizes all reconstructed regulogs for a given family of regulatory RNA across different taxonomic groups of microorganisms. Genomic distribution and repertoires of controlled genes (regulons) were analyzed for 36 families of regulatory RNAs including 15 metabolite-sensing riboswitches, 6 ribosomal operons leadears, 4 amino acid-responsive attenuators, and multiple cis-acting regulatory RNAs of yet unknown regulatory mechanism. The large collection of T-box regulons for amino acid metabolism was classified by amino acid specifcities based on detailed analysis of T-box sequences. The RNA family regulon collections are valuable for evolutionary analysis of regulatory RNAs and their regulons from the same RNA family.

Reconstructed Studied
RNA elemnet RFAM ID Regulogs RNA regulons RNA sites Genomes
Cobalamin RF00174 21 197 536 197
FMN RF00050 36 247 313 241
GEMM_RNA_motif RF01051 9 50 89 50
glmS RF00234 6 44 44 44
glnA RF01739 1 9 13 9
Glycine RF00504 18 145 324 145
His_leader RF00514 5 46 48 46
L10_leader RF00557 13 108 108 108
L13_leader RF00555 4 43 43 43
L19_leader RF00556 5 61 61 61
L20_leader RF00558 6 75 75 75
L21_leader RF00559 7 67 67 67
Leu_leader RF00512 4 42 43 42
Lysine RF00168 10 102 186 102
Mg_sensor RF01056 1 5 5 5
mini-ykkC RF01068 11 61 67 61
MOCO_RNA_motif RF01055 16 81 102 81
PreQ1 RF00522 7 51 72 51
preQ1-II RF01054 2 17 17 17
Purine RF00167 8 69 141 69
PyrR RF00515 9 79 217 79
S15 RF00114 10 97 98 97
SAH_riboswitch RF01057 8 54 67 54
SAM RF00162 11 68 257 68
SAM-Chlorobi RF01724 1 11 11 11
SAM-IV RF00634 1 8 13 8
SAM-SAH RF01727 1 13 13 13
SAM_alpha RF00521 2 28 39 28
serC RF00517 3 32 32 32
SMK_box_riboswitch RF01767 1 13 13 13
speF RF00518 1 12 12 12
sucA RF01070 2 14 14 14
T-box RF00230 91 873 1134 93
THF RF01831 3 22 23 22
Thr_leader RF00506 4 45 45 45
TPP RF00059 41 374 808 371
Trp_leader RF00513 6 48 49 48
ybhL RF00520 1 8 8 8
ydaO-yuaA RF00379 6 37 59 37
ykkC-yxkD RF00442 12 46 58 46
ykoK RF00380 8 39 48 39
ylbH RF00516 1 10 10 10
yybP-ykoY RF00080 21 159 232 159