January 30 2019 Annotating Genes 52 and 53
Purpose: The purpose of this lab was to learn more about annotations and to practice annotation on genes of Elesar.
Tools/Procedures:
Tools:
- DNA Master
- GeneMark
- NCBI
- PhagesDB
- Annotation Guide
Procedures:
- A GeneMark complete sequence was performed on Elesar
- A BLAST was performed on Elesar gene 52 with NCBI and PhagesDB and the results were compared.
- Using the annotation guide, the annotations for gene 52 were complete, excluding ST and ending after RBS. The information needed for the annotation came from DNA Master, NCBI, PhagesDB, and GeneMark.
- The following annotation was recorded on DNA Master for Elesar Gene 52. SSC:37347,37562 CP:no, no start SCS:both ST: Blast-start:Ryan,57,NCBI,1:1,98%,6e-30 Gap:4 LO:NA RBS:Kibler7,Karlin Medium,2.657,-3.320,no
- A BLAST was performed on Elesar gene 53 with NCBI and PhagesDB and the results were compared.
- Using the annotation guide, the annotations for gene 53 were complete, excluding ST and ending after RBS.
- The following annotation was recorded on DNA Master for Elesar Gene 53. SSC:37559,37732 CP:no, no start SCS:both ST: Blast-start:Elesar,50,PhagesDB,1:1, 100%, 7e-23 Gap:4 LO:NA RBS:Kibler7, Karlin Medium,2.893,-2.740,no
- The annotations were saved.
Results:
Annotations for Elesar genes 52 and 53 were begun. The start and stops were chosen, and the genes were compared to other genes on NCBI and PhagesDB.
Conclusions:
Continuing the process of learning how to manually annotate genes will aid in the process of annotating NapoleonB’s genes. The two genes annotated were not complete, but the process was begun. Both of the genes annotated matched with another protein that had very low e values. Both of the genes were also found to have overlaps with other genes. Interestingly, the BLAST results showed that Elesar Gene 53 matched with Elesar gene 50 on PhagesDB. This could be due to manual annotations that were done previously on Elesar.
Future Work:
Future work will include learning the rest of the annotations and continuing to practice annotations. This practice will eventually help in the process of annotating NapoleonB.