GeneCalc

GeneCalc is a web-based tool designed for molecular biologists and bioinformaticians to calculate the molecular weight of DNA, RNA, or protein sequences and to analyze codon usage within DNA sequences. This tool provides a user-friendly interface and advanced features to enhance the user experience, making it an essential resource for genetic sequence analysis.

Features

• Molecular Weight Calculation: Calculate the molecular weight of DNA, RNA, or protein sequences based on their nucleotide or amino acid composition.
• Codon Usage Calculator: Determine the frequency of each codon in a DNA sequence, aiding in gene optimization for different organisms.
• User-Friendly Interface: Aesthetic and calming color palette with interactive buttons and smooth animations.
• Responsive Design: Optimized layout for various screen sizes, ensuring a seamless experience across devices.
• Additional Utilities: Copy results to clipboard, reset input fields, and validate sequence inputs for accuracy.

Usage

Molecular Weight Calculator

1. Select Sequence Type:
   • Choose between DNA, RNA, or Protein from the dropdown menu.
2. Enter Sequence:
   • Input the nucleotide or amino acid sequence in the text area.
3. Calculate Molecular Weight:
   • Click on the "Calculate Molecular Weight" button to get the result.

Codon Usage Calculator

1. Enter DNA Sequence:
   • Ensure the DNA sequence length is a multiple of 3.
2. Calculate Codon Usage:
   • Click on the "Calculate Codon Usage" button to see the frequency of each codon.
3. Copy Results (Optional):
   • Click on the "Copy Results" button to copy the codon usage results to the clipboard.

How It Works

Molecular Weight Calculation

The molecular weight calculation is performed by summing the weights of each nucleotide or amino acid in the given sequence. The weights used are as follows:

• DNA Nucleotides:

  • Adenine (A): 331.2 Da
  • Thymine (T): 322.2 Da
  • Guanine (G): 347.2 Da
  • Cytosine (C): 307.2 Da

• RNA Nucleotides:

  • Adenine (A): 347.2 Da
  • Uracil (U): 324.2 Da
  • Guanine (G): 363.2 Da
  • Cytosine (C): 323.2 Da

• Amino Acids:

  • Alanine (A): 89.1 Da
  • Arginine (R): 174.2 Da
  • Asparagine (N): 132.1 Da
  • Aspartic acid (D): 133.1 Da
  • Cysteine (C): 121.2 Da
  • Glutamic acid (E): 147.1 Da
  • Glutamine (Q): 146.2 Da
  • Glycine (G): 75.1 Da
  • Histidine (H): 155.2 Da
  • Isoleucine (I): 131.2 Da
  • Leucine (L): 131.2 Da
  • Lysine (K): 146.2 Da
  • Methionine (M): 149.2 Da
  • Phenylalanine (F): 165.2 Da
  • Proline (P): 115.1 Da
  • Serine (S): 105.1 Da
  • Threonine (T): 119.1 Da
  • Tryptophan (W): 204.2 Da
  • Tyrosine (Y): 181.2 Da
  • Valine (V): 117.1 Da

Codon Usage Calculation

The codon usage calculation counts the frequency of each codon in a given DNA sequence. This information can help in optimizing gene sequences for expression in different organisms, as different organisms may have varying preferences for specific codons.

Useful Information for Geneticists and Biotechnologists

• Gene Optimization: Understanding codon usage is crucial for optimizing genes for expression in different organisms. GeneCalc provides a quick and easy way to analyze codon usage.
• Molecular Weight: Knowing the molecular weight of nucleic acids and proteins is essential for various experimental and analytical procedures, including mass spectrometry, gel electrophoresis, and more.
• Sequence Validation: GeneCalc includes validation to ensure the accuracy of input sequences, reducing the likelihood of errors in downstream applications.

Code Overview

HTML

The HTML structure includes:

• A container for the entire application.
• Form elements for sequence type selection and sequence input.
• Buttons for triggering calculations and resetting fields.
• Sections for displaying results.

CSS

The CSS styles provide:

• Aesthetic and calming color palette for the background and text.
• Enhanced buttons with hover effects and smooth transitions.
• Responsive design to ensure a consistent layout across various devices.
• Custom styling for form elements and result display sections.

JavaScript

The JavaScript functionality includes:

• Molecular Weight Calculation:
  • Calculates the molecular weight of DNA, RNA, or protein sequences based on predefined weights for each nucleotide or amino acid.
• Codon Usage Calculation:
  • Analyzes a DNA sequence to count the frequency of each codon.
• Input Validation:
  • Ensures that only valid sequences are processed for each sequence type.
• Additional Utilities:
  • Copy results to clipboard and reset input fields and results.

Installation

To run GeneCalc locally:

1. Clone the repository:

   git clone https://github.com/your-username/genecalc.git
   

2. Navigate to the project directory:

   cd genecalc
   

3. Open index.html in your web browser.

Contributing

Contributions are welcome! Please submit a pull request or open an issue to discuss any changes.

License

This project is licensed under the MIT License - see the LICENSE file for details.

Contact

For any inquiries or feedback, don't hesitate to get in touch with ME .