Gene 73
Phage Name: 
Stop Coordinate 
Direction (Forward or Reverse) 
Gap (Overlap) with Previous Gene 
Selected Start Coordinate 
Selected Function 
Hypothetical Protein 
Annotation Decision 1 (Is this a gene?): 
Gathering Evidence 
Explain Your Rationale 
Was the gene called by an auto-annotation program (Glimmer, GeneMark) 
Called by both 
"Original Glimmer call @bp 45367 has strength 6.59" 
Is there evidence for coding potential? 
Yes, there is evidence for coding potential. GeneMark S indicates intergenic coding potential. GeneMark displays no coding potential 
Both typical and atypical ps on GeneMarkS 
GeneMark shows no coding potential 
Is the gene present in other annotated genomes? 
No, orphan gene 
Does the gene violate any of the major guiding principles? 
Yes, this is a gene 
Annotation Decision 2 (What is the best possible start site for this gene?): 
Gathering Evidence 
Explain Your Rationale 
What start site do Glimmer and GeneMark suggest? 
"Original Glimmer call @bp 45367 has strength 6.59" 
Does the start site have an associated ribosome binding site with a high score? 
Yes, thiis site has the highest available start site.  
Is the predicted start codon the longest ORF? If not, does the longest ORF result in excessive overlap (>30bp)? 
No, this start side does not lead to the longest possible ORF.  
Is the start site conserved in other genomes as indicated by Starterator? 
Orphan, no data 
Is the start site conserved in other phage genomes as indicated by BLASTp? 
Np start site conservation 
BLASTp PhagesDB: Q9:S130 
BLASTp NCBI: No results 
BLASTp DNA Master: No results 
45367 is the start site 
Annotation Decision 3 (What is the function of the putative protein?): 
Gathering Evidence 
Explain Your Rationale 
Does the protein align with a protein having functional assignment in BLASTp (phagesDB and/or GenBank) with an alignment of 10^-4 or smaller? 
Low scoring matches. 'Best' of those matches have no homologous proteins 
PhagesDB BLASTp: e-value = .079 
NCBI BLASTp: e-value =  n/a 
DNA Master BLASTp: e-value = n/a 
Does this protein align with a protein having a functional assignment in the PDB or other database in HHPred with a probability of 90% or greater with appropriate coverage? 
No quality match 
Is the gene located adjacent to genes of known function and in a region of the genome that shows high conservation of gene order? 
Gene order from Lewando_70-80 is loosely conserved in AU6. This region, like the previously mentioned region contains many rep proteins involved in DNA replication. This regional function can be useful in function assignments.    
Is the proposed function found on the SEA-PHAGES approved function list? 
Hypothetical Protein 