Rationale: 

The purpose of today’s lab was to annotate given genes for phage Elesar.

Tools:

• Laptop
• DNA Master
• Genemark
• NCBI BLASt

Procedure:

• Continued with annotation of gene one from 1/28/19.
• Determined preferred RBS for gene one would make gene way too small, so disregarded the suggested RBS as the z score was not good enough and changing the start would make the gene too small.
• Was assigned genes 30 and 31 to annotate.

Results: 

• Annotation Notes For Gene 30:
  • SSC:22118, 22477 CP:yes SCS:Both-Both BLAST-Start: Nandita gp29, NCBI,  q1:s1, 78%, 9E-62 Gap:overlap 1bp LO: yes RBS: Kibler7, Karlin Medium, 2.408, -3.770, yes
  • Protein BLAST result matched with a hypothetical protein produced by gene 29 of Arthrobacterphage Nandita with 78% coverage and an e score of 9e-62.
  • 
• Annotation Notes for Gene 31:
  • SSC:22487, 23215 CP:yes SCS:Both-Both ST: BLAST-Start:Ryan, gp30, NCBI, q1:s1, 83%, 2e-139   Gap:9 LO:yes RBS: Kibler7, Karlin Medium, 2.117, -4.325, yes
  • Protein BLAST results yielded a hypothetical protein produced by gene 30 of Arthrobacterphage Ryan, with 78% coverage and an e score of 2e-139. In addition to this gene, the next best hit was with gene 30 of Arthrobacterphage Nandita, with 81% coverage but an e score of 4e-139.
  • 

Conclusions:

The two genes that were annotated both hit on the same phage, and this was the case with several other genes annotated by classmates nearby. It can be inferred that these different phages are in the same cluster, or share some similar trait that calls for this same hypothetical protein to be made. It is unaware of what the protein is and what the suggested function of the protein is as well. Both genes had excellent coding potential, and are very close in proximity to one another.

Next Steps:

It could be possible to annotate the surrounding genes for any known proteins. If they are discovered then at least a function of the hypothetical protein could be deducted from the surrounding genes. Further annotation practice using phage Elesar is required.