NAME: SIBGHANOOR
ROLL NO:227137
DEPARTMENT: BIOINFORMATICS
SEMESTER: 6TH
SUBJECT: BIOCOMPUTING
SUBMITTED TO: SIR SAAD UR REHMAN
DATE :23, MARCH 2025
Names of 10 genes:
1.F2(Prothrombin)
2.BRCA1(Breast cancer)
[Link] (Methylenetetrahydrofolate reductase)
[Link] (Transforming Growth Factor Beta-induced)
5.IL6 (Interleukin 6)
[Link] (Apolipoprotein E)
[Link] (Vascular Endothelial Growth Factor A)
[Link] (Epidermal Growth Factor Receptor)
[Link] (Tumor Necrosis Factor)
10.TP53(Tumor Protein)
GENE SQUENCE RETRIEVAL FROM Gen BANK:
Access the GenBank Database: Visit the GenBank database via the NCBI website.
Search the Gene of Interest: Type in the gene name, accession number, or keyword in
the search bar. You can also specify the organism for better search precision.
Choose the Desired Record: Look through the search results and select the record that
matches your gene of interest.
View Sequence Information: Open the record to find detailed information, including the
gene sequence.
Download the Sequence: Use the "Send to" option to download the sequence in formats
like FASTA for analysis or reference.
Finding the Gene Function
1. NCBI Gene Database: Use the NCBI Gene database to search for functional annotations
related to the gene. The "Summary" and "Bibliography" sections often provide insights.
2. BLAST Analysis: Perform a BLAST (Basic Local Alignment Search Tool) search to
find homologous sequences with known functions.
3. Conserved Domains: Analyze conserved domains using tools like NCBI's Conserved
Domain Database (CDD) to predict the gene's role.
4. Literature Search: Explore related research articles in PubMed for experimental
evidence of the gene's function.
Finding the Protein Sequence
Retrieve the Gene Record: After searching for your gene of interest on GenBank and
opening its detailed record, look at the right-hand side of the page.
Protein Section: Many entries will have a "Protein" link in the sidebar. Clicking on it
will take you to the corresponding protein record.
Protein Details: Once on the protein page, you can access its sequence (in FASTA
format) and any available annotations about its structure, function, or features.
Protein Structure: If a 3D structure has been solved for the protein, you'll often find
links to databases like the Protein Data Bank (PDB) for further exploration.
3D Structure of protein:
Search in PDB: Go to the PDB website and input the protein name or sequence.
The PDB database holds 3D structures determined through experimental methods
like X-ray crystallography or NMR spectroscopy.
Gene sequence, function of gene, protein sequence, 3Dstructure:
1.F2 GENE:
SEQUENCE OF GENE:
PROTEIN SEQUENCE:
3D STRUCTURE OF PROTEIN:
[Link] GENE:
The BRCA1 gene plays a pivotal role in maintaining genomic stability. It
encodes a protein involved in repairing damaged DNA through a process
called homologous recombination. This repair mechanism ensures that
DNA damage doesn't accumulate, which could otherwise lead to mutations
and cancer development.
GENE SEQUENCE:
PROTEIN SEQUENCE:
3D STRUCTURE OF PROTEIN:
3. MTHFR GENE:
Function of gene:
GENE STRUCTURE:
PROTEIN STRUCTURE:
4.TGFB1:
Protein sequence:
3D STRUCTURE:
5.IL6:
[Link]:
[Link]:
[Link]:
.TNF:
10.TP53:
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