Annotated gene sequence

Experiment = cell-free SHAPE/ 1M7 Cell = MG1655 Original Data Reference = Cell. 2018;173(1):181-195.e18.

stable secondary structure loop bulge/internal loop no SHAPE data coding sequence

ATGGATTCGCAACGCAATCTTTTAGTCATCGCTTTGCTGTTCGTGTCTTTCATGATCTGGCAAGCCTGGGAGCAGGATAAAAACCCGCAACCTCAGGCCC
AACAGACCACGCAGACAACGACCACCGCAGCGGGTAGCGCCGCCGACCAGGGCGTACCGGCCAGTGGCCAGGGGAAACTGATCTCGGTTAAGACCGACGT
GCTTGATCTGACCATCAACACCCGTGGTGGTGATGTTGAGCAAGCTCTGCTGCCTGCTTACCCGAAAGAGCTGAACTCTACCCAGCCGTTCCAGCTGTTG
GAAACTTCACCGCAGTTTATTTATCAGGCACAGAGCGGTCTGACCGGTCGTGATGGCCCGGATAACCCGGCTAACGGCCCGCGTCCGCTGTATAACGTTG
AAAAAGACGCTTATGTGCTGGCTGAAGGTCAAAACGAACTGCAGGTGCCGATGACGTATACCGACGCGGCAGGCAACACGTTTACCAAAACGTTTGTCCT
GAAACGTGGTGATTACGCTGTCAACGTCAACTACAACGTGCAGAACGCTGGCGAGAAACCGCTGGAAATCTCCTCGTTTGGTCAGTTGAAGCAATCCATC
ACTCTGCCACCGCATCTCGATACCGGAAGCAGCAACTTCGCACTGCACACCTTCCGTGGCGCGGCGTACTCCACGCCTGACGAGAAGTATGAGAAATACA
AGTTCGATACCATTGCCGATAACGAAAACCTGAACATCTCTTCGAAAGGTGGTTGGGTGGCGATGCTGCAACAGTATTTCGCGACGGCGTGGATCCCGCA
TAACGACGGTACCAACAACTTCTATACCGCTAATCTGGGTAACGGCATCGCCGCTATCGGCTATAAATCTCAGCCGGTACTGGTTCAGCCTGGTCAGACT
GGCGCGATGAACAGCACCCTGTGGGTTGGCCCGGAAATCCAGGACAAAATGGCAGCTGTTGCTCCGCACCTGGATCTGACCGTTGATTACGGTTGGTTGT
GGTTCATCTCTCAGCCGCTGTTCAAACTGCTGAAATGGATCCATAGCTTTGTGGGTAACTGGGGCTTCTCCATTATCATCATCACCTTTATCGTTCGTGG
CATCATGTACCCGCTGACCAAAGCGCAGTACACCTCCATGGCGAAGATGCGTATGTTGCAGCCGAAGATTCAGGCAATGCGTGAGCGTCTGGGCGATGAC
AAACAGCGTATCAGCCAGGAAATGATGGCGCTGTACAAAGCTGAGAAGGTTAACCCGCTGGGCGGCTGCTTCCCGCTGCTGATCCAGATGCCAATCTTCC
TGGCGTTGTACTACATGCTGATGGGTTCCGTTGAACTGCGTCAGGCACCGTTTGCACTGTGGATCCACGACCTGTCGGCACAGGACCCGTACTACATCCT
GCCGATCCTGATGGGCGTAACGATGTTCTTCATTCAGAAGATGTCGCCGACCACAGTGACCGACCCGATGCAGCAGAAGATCATGACCTTTATGCCGGTC
ATCTTCACCGTGTTCTTCCTGTGGTTCCCGTCAGGTCTGGTGCTGTACTATATCGTCAGCAACCTGGTAACCATTATTCAGCAGCAGCTGATTTACCGTG
GTCTGGAAAAACGTGGCCTGCATAGCCGCGAGAAGAAAAAATCCTGA

Loop counts:

4 nts: 2
5 nts: 3
6 nts: 5
7 nts: 1
8 nts: 1
9 nts: 3

Tetra-loop variants:

ACCA    1
UGUU    1

Single bulge variants:

G x 0 bulge: 0
A x 0 bulge: 2
U x 0 bulge: 3
C x 0 bulge: 1

1 x 1 internal loop variants:

G x G bulge: 1
G x A bulge: 3
G x U bulge: 0
G x C bulge: 0
A x G bulge: 3
A x A bulge: 0
A x U bulge: 0
A x C bulge: 4
U x G bulge: 0
U x A bulge: 0
U x U bulge: 2
U x C bulge: 0
C x G bulge: 0
C x A bulge: 4
C x U bulge: 0
C x C bulge: 1