List

1.Introduction

Rice-GainFun (干饭) is a database of the collections of Rice Gain-of-Function mutants that are generated using a random full-length cDNA over-expression strategy. In the meantime, all the Rice-GainFun accessions could also be served as loss-of-function mutants, providing the isolation of the flanking sequences of the Over-expression cassettes or Tos17 retrotransposons.

2.Home

To help users quickly understand Rice-GainFun, a brief introduction to the Rice-GainFun mutant database is provided on the main page.

The database update message is displayed on the left side of the middle of the page.

A search bar has been set up on the right side of the middle of the page. The user enters the gene ID of Nihonomi in the search bar and clicks the "SEARCH" button to jump to the overall overview page of the mutant information corresponding to the gene. For example, enter "LOC_Os08g44520, LOC_Os12g17600" and click "SEARCH" to jump to the overview page.

At the bottom of the page, the functional modules of the Rice-GainFun mutant database are introduced, and quick links to important functions are provided. Users can click the green module name in the card under "Resources" to quickly link to the page where the corresponding functional module is located. For example, clicking "Mutant" will link to the "MUTANT" query page, facilitating users to quickly enter the query information page or conduct other functional analysis.

3.Mutant

On the mutant search page, the user can search for the detailed information of the mutant using the mutant ID, the gene ID of Nihonomi, and the mutant body surface type.

Display the results of searching for mutant details using mutant IDs.

Display the results of searching for mutant details using gene IDs.

Display the results of searching for detailed information about the mutant using the mutant body surface type description.

Click on the mutant ID to view the detailed information of the mutant, including the overexpressed FL-cDNA ID in the mutant, the insertion site of FL-cDNA in the genome, the description of the mutant surface type, the mutant phenotype image, and the possible stress resistance phenotype of the mutant.

4.FL-cDNA

On the FL-cDNA search page, users can search for detailed information about FL-cDNA using FL-cDNA ID, gene ID, and mutant ID.

Display the results of searching for FL-cDNA details using FL-cDNA ID.

Display the results of searching for FL-cDNA details using gene IDs.

Display the results of searching for FL-cDNA details using mutant IDs.

Click FL-cDNA to view the detailed information of FL-cDNA, including the corresponding gene ID of FL-cDNA, the corresponding read ID for sequencing, the read length, the content of the read sequence, and the distribution of barcodes on the read.

5.T-DNA

On the T-DNA search page, users can search for T-DNA details using T-DNA ID and mutant ID.

Display the results of searching for T-DNA details using T-DNA ID.

Display the results of searching for T-DNA details using mutant IDs.

Click T-DNA to view the detailed information of T-DNA, including the corresponding gene ID of T-DNA, the corresponding read ID for sequencing, the read length, the content of the read sequence, and the distribution of barcodes on the read.

6.Tos17

On the Tos17 search page, users can use the Tos17 ID and mutant ID to search for the details of Tos17.

Display the results of searching for Tos17 details using the Tos17 ID.

Display the results of searching for Tos17 details using the mutant ID.

Click on the Tos17 ID to view the detailed information of Tos17, including the corresponding gene ID of Tos17, the corresponding read ID for sequencing, the read length, the content of the read sequence, and the distribution of barcodes on the read.

7.BLAST

On the blast page, users can submit a nucleic acid sequence or fasta sequence file to search for data stored in this database.

Submit a nucleic acid sequence to search for data stored in this database.

Submit a fasta file to search for stored data in this database.

The BLAST results are displayed in a table format, and can be compared and filtered based on Identities and Score.

Click the ID displayed in green in the Subject column of the comparison result to view the information in this database corresponding to that ID.

8.Homologues

9.DEG

10.Protein

On the protein information search page, users can search for detailed protein information using the protein ID of Nipponbare.

Click on the protein ID to view the detailed information of the protein, including its protein sequence, molecular weight, isoelectric point, location of the corresponding gene on the chromosome, subcellular localization, structural functional domain, 3D structure, GO, KEGG, and homologous genes.