2.13.19 Annotations of Genes 51 and 52

Rationale: Since the first two assigned genes had been processed and annotated on Monday, today it was found to be pertinent to finish annotating the remaining two assigned genes. Therefore, genes 51 and 52 were completed during today’s lab time.

Tools/Procedure:

• DNA Master
• HHPred
• BLAST (NCBI)
• BLAST (PhagesDB)
• Genemark
• Phamerator

1. Opened DNA Master
2. Annotated genes 51 and 52 using the above tools

Results:

Gene 51

SSC:32825 – 33016, CP:Yes, SCS:Both, ST:SS, BLAST-Start:Aligns with Arthrobacter Phage Mudcat gp47 NCBI BLAST q1:s1 0.98 3E-39, Aligns with Arthrobacter Phage Mudcat gp47 PhagesDB BLAST q1:s1 1 3E-32, Gap:0bp gap, LO:NA, RBS:Kibbler7 and Karlin Medium 2.611 -3.374 Yes, F:NKF, SIF-BLAST:NKF, SIF-HHPred:NKF, SIF-Syn:NKF

Gene 52

SSC:33040 – 33168, CP:Yes, SCS:Both, ST:SS, BLAST-Start:Aligns with Arthrobacter Phage Circum gp53 NCBI BLAST q1:s6 0.9756 9E-21, Aligns with Arthrobacter Phage Circum gp53 PhagesDB BLAST q1:s1 0.97 2E-17, Gap:23bp gap, LO:Yes, RBS:Kibbler7 and Karlin Medium 3.263 -2.524 Yes, F:NKF, SIF-BLAST:NKF, SIF-HHPred:NKF, SIF-Syn:NKF

Conclusions: Since all signs point to no function being found for either gene 51 or 52, it can officially be concluded that these genes can be considered to have no function. Annotations have officially been completed for all four genes that had been assigned in class for NapoleonB.

Next Steps: The next steps will be checking the annotations for the whole class to ensure that all genes had been called properly with the correct format. After, the annotations will be able to be imported to the DNA Master system from PhageNotes.