List of Sequences in NCBI
Avoid
Lung-eye-trachea virus (LETV, GenBank AY124577.1),
loggerhead genital-respiratory virus (LGRV; GenBank EU004539, EU004540, EU004541)
and loggerhead orocutaneous herpesvirus (LOCV; GenBank EU004542, EU004543, EU004544).
Also want to avoid the so-called loggerhead herpesvirus
and the olive ridley herpesvirus.
TARGET
Will blast 95 sequence against herpesvirus to try to find genes where most species have information
Table only uses Accession #s
New Strategy
Exclude Target in Blast
TAKE HOME
There are a lot of sequences (~95) for target and limited for ones we do not want to hit.
Going to pick a gene and see what we get.
Glycoprotein might be good because it is long, but DNA polymerase is only gene sequenced in most viruses.
Targeting a DNA polymerase is option but though there is a lot of species with the sequence the amount of sequence (length) is limited.
Using BLAST to find all FP polymerases
Fasta file of FP DNA polymerases
