Chemical Approaches for Structure and Function of RNA in Postgenomic Era

Table 7

Reagents and procedures required for sequencing.

Detection of external modification	Oligo-dT column; Borate column; Antibodies against m^7G, m32,2,7G, and others
Labeling	Prelabeling (in vivo) with [^32P]-phosphate; Postlabeling (in vitro); 5^ [^32P] labeling; 3^ [^32P] labeling; 3^ and 5′ [^3H]-derivative labeling
Enzymes
Endonucleases	RNase T1(Gp↓N), RNase A(Up↓N or Cp↓N), RNase U2(Ap↓N), PhysI(C-resistance), RNase T2(Np↓N),; RNase P1(pNm↓pN, pN↓pN), Debranching enzyme
Exonuclease	Spleen phosphodiesterase
	Snake venom phosphodiesterase
	Pyrophosphatase (-p↓p-)
Phosphatase	Phosphatase (p↓N and N↓p)
Chemicals
CMCT	React with U>Ψ>G>I on ssRNA
DMS	Methylate G>A>C on ssRNA
Diethyl pyrocarbonate	React with A>G
Hydrazine	React with U>>C>T
Limited hydrolysis	Formamide; Hot water (80°C)
Fractionation	2D acrylamide gel electrophoresis; 2D homochromatography; 2D electrophoresis; 2D paper chromatography; 2D thin layer chromatography