ZTPRSW_BZCN_0002

Construct

RMDB ID

ZTPRSW_BZCN_0002

Name

pfl ZTP Riboswitch, C. beijerinckii, 0 mM ZMP, Replicate 2

Sequence (132 nt)

AUAUUAGAUAUUAGUCAUAUGACUGACGGAAGUGGAGUUACCACAUGAAGUAUGACUAGGCAUAUUAUCUUAUAUGCCACAAAAAGCCGACCGUCUGGGCAAAAAAAGCCUGGAUUGCGUCGGCUUUUUUAU

Structure

....................................................................................................................................

Offset

0

# of constructs

104

# of data points

8240

Last modified

11/04/19

Version

1

Owner

Eric Strobel

Comments

REACTIVITY and READS are stored below in groups for each replicate. Reactivity is first, then positive reads, followed by unmodified reads
Reactivities are reported as rhos
rho_i = theta_i * L, where L = length of RNA sequence
See Aviran, S., Lucks, J.B., and Pachter, L. (doi:10.1109/Allerton.2011.6120379) for theta_i and beta_i reactivity definitions
Cotranscriptionally folded wt C. beijerinckii pfl ZTP riboswitch without ZMP, 30 seconds of transcription
Linker sequences removed
Transcipt lengths 88 and 110 (lines 59 and 81) contain junk reactivities due to ambiguous alignment of transcript 3' ends and should be ignored

Annotation

• experiment: cotranscriptional SHAPE-Seq
• modifier: BzCN
• chemical: DMSO:2% chemical:Tris-acetate:20mM (pH8.0) chemical:MgCl2:10mM chemical:EDTA:0.1mM chemical:DTT:1mM chemical:KCl:50mM chemical:NTPs:500uM chemical:BSA:1mg/mL temperature:37C