Annotation of NapoleonB 2/11/2019

Rationale

The rationale behind these procedures is to start annotations on NapoleonB so that other research can be conducted.

Tools/Procedure

1. NapoleonB FASTA file was downloaded
2. FASTA file was opened (File > Open> FastA Multiple Sequence File)
3. Contents of the file were exported (Export . Create Sequence from this Entry Only)
4. Contents of the file were auto annotated (Genome > Auto Annotate > click “yes”)
5. Reading frames were examined (Genome > Frames> click “ORFS” button)
6. Gene locations were compared paying attention to gaps and overlap
7. NCBI, Phages DB, and HHPred systems were used to BLAST amino acid sequences
8. Starterator and genemark were used to determine if the genes ought to be altered to include more or fewer base pairs
9. The information gathered was used to update phage notes

Results

Gene 65- SSC:41757 – 41909, CP:Yes, SCS:Glimmer, ST:SA, BLAST-Start:Aligns with Arthrobacter phage Cheesy gp63 NCBI BLAST q1:s1 0.87 7E-22, Aligns with Arthrobacter Phage Cheesy gp63 PhagesDB BLAST q1:s1 1 7E-20, Gap:24bp overlap, LO:NA, RBS:Kibbler7 and Karlin Medium 3.269 -2.511 No, F:NKF, SIF-BLAST:NKF, SIF-HHPred:NKF, SIF-Syn:, upstream gene is , downstream gene is , just like in phage

Gene 66- SSC:41909 – 42091, CP:Yes, SCS:Both, ST:SS, BLAST-Start:Aligns with Arthrobacter phage Cheesy gp64 NCBI BLAST q1:s1 0.86 2E-24, Aligns with Arthrobacter Phage Kardesai gp65 PhagesDB BLAST q1:s1 1 4E-27, Gap:1bp overlap, LO:NA, RBS:Kibbler7 and Karlin Medium , F:NKF, SIF-BLAST: Supported by NCBI BLAST gp , Supported by PhagesDB BLAST gp , supported by a CD found from the databse gp , , SIF-HHPred: supported by gp , SIF-Syn:, upstream gene is , downstream gene is , just like in phage

Conclusion

There is very little information from which to draw conclusions about the data set; however, it appears that there is no known function for genes 65 and 66. As the rest of Napoleon B is annotated I will be able to draw more conclusions from the data.

Future Plans

In the future, I will continue my annotations of NapoleonB with the goal of being able to research my own questions once the gene is fully annotated.