BODIPY TR maleimide常用于显微镜观察和荧光偏振分析等实验，其马来酰亚胺基团在pH值6.5到7.5之间能够与巯基发生反应，形成硫酯键。这一特性使得它在生物化学和分子生物学等领域具有一定的应用价值，可用于标记含有巯基的生物分子，如蛋白质等。
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