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Updated: Aug 9, 2025

RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA

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Published on: April 10, 2018

Structural analysis of MALAT1 long noncoding RNA in cells and in evolution.

Anais Monroy-Eklund¹, Colin Taylor¹, Chase A Weidmann²

¹Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA.

RNA (New York, N.Y.)

|February 15, 2023

Summary

The long noncoding RNA MALAT1 has a conserved triple helix structure critical for stability. Its overall structure remains remarkably conserved across cell types and species, despite sequence variations.

Keywords:

MALAT1 RNA structure SHAPE green monkey primates

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An Integrated Approach for Microprotein Identification and Sequence Analysis

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Published on: July 12, 2022

Area of Science:

Molecular Biology
Genomics
RNA Biology

Background:

The long noncoding RNA MALAT1 is crucial in various biological processes.
MALAT1 features a conserved 76-nt triple helix structure at its 3' end, essential for stability.
Primary sequence analysis alone does not fully capture MALAT1's structural conservation.

Purpose of the Study:

To investigate the in-cell and cell-free structures of human and green monkey MALAT1 transcripts.
To assess structural conservation across different cell lines, conditions, and species.

Main Methods:

Utilized SHAPE chemical probing for structural analysis.
Examined full-length MALAT1 transcripts from human and green monkey (Chlorocebus sabaeus).
Analyzed transcripts in multiple tissue-derived cell lines, both in-cell and cell-free.

Main Results:

Revealed uniform structural conservation of MALAT1 across diverse cell lines and conditions.
Demonstrated significant structural conservation between human and green monkey MALAT1 transcripts.
Observed consistent structural stability despite variations in primary sequence.

Conclusions:

MALAT1 exhibits remarkable structural conservation throughout its entire transcript, extending beyond the known triple helix region.
This conservation is maintained across different cellular contexts and primate species.
The findings highlight the importance of MALAT1's overall structure for its function.