🌾 Plant uORF-pep Database

Help - How to Use This Database

🔍 Search by Gene ID

Enter a valid gene ID in the search box. Examples:

🎯 Filter by Species

Use the dropdown menu to restrict your search to a specific species. If no species is selected, the database will search across all species.

🔤 Case-Insensitive Search

Search is case-insensitive. Entering arv1, ARV1, or Arv1 all return the same results across species.

🔎 Prefix Search

If an exact match is not found, the database automatically tries prefix matching. For example, searching ZIF will find ZIF1, ZIF2, ZIFL1, and other genes starting with "ZIF".

📋 Multiple Transcripts

When a gene has multiple transcript variants, all are listed. Click "View" to see uORF details for each transcript.

📊 Understanding Results

• Species: Scientific name of the source organism
• Gene ID: Unique identifier in the source database
• Transcript ID: Specific mRNA isoform identifier
• 5' UTR Length: Length of the 5' untranslated region in base pairs
• uORF Count: Number of upstream open reading frames identified
• uORF Sequences: Nucleotide sequences of all identified uORFs
• uORF Peptides: Amino acid sequences encoded by uORFs
• 🔬 Ribo-seq Validated: green badge indicates the gene has translation evidence from public Ribo-seq data. Currently available for Arabidopsis, Maize, Tomato, Medicago, Rice, and Sorghum. See About page for details.

📥 Data Download

Complete datasets for each species are available in the Download section. Files are in TSV format and can be opened with spreadsheet software or analyzed with custom scripts.

❓ Troubleshooting

• Too many results: Try selecting a specific species or using a more precise gene ID to narrow down results
• No results found: Check the gene ID format and try a different species or use prefix search
• Gene ID not recognized: Some gene IDs may not have a 5' UTR or may use a different naming convention
• Page not loading: Check your internet connection or try refreshing the page

📧 Need More Help?

Contact: liucf@issas.ac.cn