Annotation of Phage Elesar Genes 12 and 13

Date: 1-30-19

• Rational
  • The rational for this lab was to annotate two more genes from phage Elesar in order to gain practice in annotation before transitioning to phage NapoleonB.
• Procedure
  1. DNA Master was opened.
  2. File > Open > Archived DNA Master File was used to open the same Elesar FastA file from before.
  3.  Gene 12 was selected through the listing of predicted genes, and the Product was copied.
  4. The amino acid sequence was loaded into the BLASTp feature on the NCBI website and the BLAST results were analyzed and recorded on the template.
  5.  Gene 13 was selected through the listing of predicted genes, and the Product was copied.
  6. The amino acid sequence was loaded into the BLASTp feature on the NCBI website and the BLAST results were analyzed and recorded on the template.
  7. Ctrl + Alt + F brought up the Frames of the genome, ORFS was selected to show the locate open reading frames, and RBS was selected to determine the ribosome binding site for the first gene
  8. Using the acquired information, the 12th and 13th genes were annotated.
• Results
  • The following annotations were made for Elesar gene 12 :
    • SSC: 8224, 8568
    • CP: yes
      • 
    • SCS: both
      • Glimmer and GeneMark both called the gene at bp 8224 and this choice was selected.
    • BLAST-Start: Arthrobacter phage Nandita, gp13, NCBI, Query 12 to Subject 1, 87%, 5e-58
      • 
    • Gap: 7 bp overlap
    • LO: yes
    • RBS: Kibler7, Karlin Medium, 2.463, -3.670, no
  • The following annotations were made for Elesar gene 13 :
    • SSC: 8565, 8840
    • CP: yes
      • 
    • SCS: both
    • BLAST-Start: Arthrobacter phage Nandita, 14, NCBI, Query 13 to Subject 1, 76%, 3e-38
      • 
    • Gap: 2 bp gap
    • LO: yes
    • RBS: Kibler7, Karlin Medium, 1.137, -7.054, no
• Conclusion
  • Phage Elesar genes 12 and 13 are similar to a hypothetical protein and a head-to-tail stopper in the genome of Arthrobacter Phage Nandita.
• Future Plans
  • The next step is to continue annotating more genes on Elesar for practice before transitioning to NapoleonB.