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Related Concept Videos

RNA Splicing01:32

RNA Splicing

Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
RNA Splicing01:32

RNA Splicing

Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
Pre-mRNA Processing: RNA Splicing01:32

Pre-mRNA Processing: RNA Splicing

Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
Alternative RNA Splicing02:18

Alternative RNA Splicing

Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
Alternative RNA Splicing02:18

Alternative RNA Splicing

Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
Chromatin Structure and RNA Splicing02:41

Chromatin Structure and RNA Splicing

In eukaryotic cells, nascent mRNA transcripts need to undergo many post-transcriptional modifications to reach the cell cytoplasm and translate into functional proteins. For a long time, transcription and pre-mRNA processing were considered two independent events that occur sequentially in the cell. However, it has now been well established that transcription and pre-mRNA processing are two simultaneous processes that are precisely regulated inside the cell.
The chromatin structure, especially...

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Related Experiment Video

Updated: Jun 23, 2026

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
08:35

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

SpliceSelectNet: a hierarchical Transformer-based deep learning model for splice site prediction.

Yuna Miyachi1, Kenta Nakai1,2

  • 1Department of Computer Science, Graduate School of Information Science and Technology, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, 113-8656 Tokyo, Japan.

Nucleic Acids Research
|June 22, 2026
PubMed
Summary
This summary is machine-generated.

Accurate RNA splicing is crucial for health, but predicting splice sites computationally is challenging. A new deep learning model, SpliceSelectNet, effectively models long-range DNA dependencies for improved splice site prediction and disease detection.

Related Experiment Videos

Last Updated: Jun 23, 2026

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
08:35

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

Area of Science:

  • Genomics
  • Computational Biology
  • Molecular Biology

Background:

  • Accurate RNA splicing is vital for gene expression and protein function.
  • Mutations causing aberrant splicing are linked to diseases like cancer.
  • Current computational methods struggle with long-range dependencies in splice site prediction.

Purpose of the Study:

  • To develop a deep learning model for accurate splice site prediction and aberrant splicing detection.
  • To address limitations in handling long-range dependencies in existing computational tools.
  • To create a biologically interpretable framework for understanding splicing regulation.

Main Methods:

  • Developed SpliceSelectNet (SSNet), a hierarchical Transformer-based deep learning model.
  • Integrated local and global attention mechanisms to capture proximal and distal regulatory signals.
  • Utilized single-nucleotide resolution for precise splice site prediction up to 100 kb DNA sequences.

Main Results:

  • SSNet achieved state-of-the-art performance in splice site prediction and aberrant splicing detection on benchmark datasets.
  • In silico mutagenesis confirmed that SSNet's attention scores reflect functional sequence importance.
  • Long-range sequence perturbation experiments demonstrated SSNet's ability to capture distal regulatory effects.

Conclusions:

  • SSNet provides a biologically interpretable framework for modeling long-range splicing regulation.
  • The model enhances the accuracy of splice site prediction and aberrant splicing detection.
  • SSNet offers a powerful tool for understanding genetic disorders and developing therapeutic strategies.