Annotation Update

By: Sandra, Tal, Morella

MarQuardt: A3 Phage Annotated

• Genes 1-20

– Tal: Genes 1-8

–Morella: Genes 9-16

– Sandra: Genes 17-20

Areas of Confusion

• Is this gene’s coding potential all included?

More Areas of Confusion

• It was hard to see which gene was which between DNA Master and the Phamerator Maps

• Gene 1 was confusing as to whether it was actually a gene or not because of all the factors that played in Gene 1 was also difficult because it was the

first gene annotated

Genes Added or Deleted

• No genes were added to our annotated genes

• Gene 1 was deleted

-Lack of start codon

-No Blast match

-Gene is too short

-Coding potential is just a peak

Interesting Features

• There are 3 tRNAs in our section to annotate

• We have not annotated them yet

Interesting features• Gene 5 and 7 had an overlap with the

previous gene, so they were both changed and their SD scores and ORFs were lowered

Gene 5

Gene 7

More Interesting Features

• For the blast match, genes 10-16 match with Vix or Bxz2

• Only gene 9 matches with JHC117 in our sequence annotated

• For the blast match, genes 17-20 all matched with Bxz2

Phamerator SummaryGene Pham Number of Members Cluster

2 6482 101 A1-A10, T, Muddy

3 1843 140 A1-A10

4 2104 53 A3, A4, A7, A10

5 3774 69 A2-A4, A6, A7, A9, A10

6 6505 200A2-A6, A8-A10, B1-B5, F1, I1, I2, K1-K5, L1, L3, M, N, P, Dori, Muddy,

Patience, Sparky-draft

7 2102 26 A2-A4, A10

8 4284 423

A1-A10, B1-B5, C1, D, E, F1, F2, G, H1, H2, I1, I2, J, K1-K5, L1-L3, M, N, O, P Q, R, S, T, DS6A, Moo Moo draft, Muddy, Patience, Sparky-draft,

Wildcat

9 3634 347A1-A5, A7-A8, A10, B1-B4, C1, F1-F2, G, I1, J, K1-K5, L1-L3, M, N, O, P,

Q, R, DS6A, MooMoo-Draft, Patience, Wildcat

10 4144 148 A1-A1, S, T, DS6A, Muddy, Sparky-Draft

11 6487 151 A1-A10, J, S, T, Muddy

12 1839 141 A1-A10

13 1840 95 A1-A10

14 1841 95 A1-A10

15 255 78 A2-A4, A6, A7, A9, A10

16 7 140 A1-A10

17 6504 119 A1-A10, B4, I1. I2, K4, N, P, Dori

18 8 140 A1-A10

19 9 140 A1-A10

20 10 140 A1-A10

Gene 8 Pham Circle

• This map displays that Pham 4284 is found in many different Clusters

Map of Patience and MarQuardt

Questions Remaining

• Coding potential of gene 16

• Genes 17-20 were straightforward and only a few start codons were changed

• The 3 tRNAs need to be annotated