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Updated: Feb 8, 2026

The ITS2 Database

The ITS2 Database

Published on: March 12, 2012

PtRFdb: a database for plant transfer RNA-derived fragments.

Nikita Gupta¹, Ajeet Singh¹, Shafaque Zahra¹

¹Lab #202, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi, India.

Database : the Journal of Biological Databases and Curation

|June 26, 2018

Summary

Researchers have developed PtRFdb, a new database cataloging plant transfer RNA-derived fragments (tRFs). This resource aids in the study and characterization of these small RNAs across various plant species.

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Screening and Identification of RNA Silencing Suppressors from Secreted Effectors of Plant Pathogens

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RNA Blot Analysis for the Detection and Quantification of Plant MicroRNAs

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Published on: July 11, 2020

Area of Science:

Molecular Biology
Bioinformatics
Plant Science

Background:

Transfer RNA-derived fragments (tRFs) are small RNAs generated from transfer RNAs (tRNAs).
While extensively studied in animals, tRFs in plants remain underexplored.
A centralized resource is needed for plant tRF research.

Purpose of the Study:

To introduce PtRFdb, a comprehensive database for plant tRFs.
To facilitate the exploration and characterization of plant tRFs.
To provide a valuable resource for the scientific community studying plant small RNAs.

Main Methods:

Analysis of 1344 small RNA sequencing datasets from 10 diverse plant species.
Identification and cataloging of unique tRFs, including tRF-1, tRF-3, and tRF-5 types.
Development of a user-friendly database with search, browse, and download functionalities.

Main Results:

Identification of 5607 unique plant tRFs across 10 species.
PtRFdb contains detailed information including sequence, genomic location, and associated metadata.
The database offers advanced search options and data download capabilities.

Conclusions:

PtRFdb is a unique and valuable resource for plant tRF research.
The database will aid in the validation and further characterization of plant tRFs.
Facilitates comparative studies and functional analysis of plant tRFs.