pYPK7

is a version of pYPK0 with kanMX4 marker instead of URA3



In [1]:

    
from pydna.all import *

pYPK0 =read("pYPK0.gb")

gb=Genbank("bjornjobb@gmail.com")

template = gb.nucleotide("AF298793.1") # pUG6
#template = gb.nucleotide("AJ002680.1") # pFA6a-kanMX4



In [2]:

    
p678, p666 =parse('''
>678_pYPK0_hygfwd: (77-mer)
ctcacgttaagggattttggtcatgagCACATACGATTTAGGTGACACTATAGAAC

>666_pYPK0_hygrev (70-mer)
catctttgacagcttatcatcgataagctCGACTCACTATAGGGAGACC''', ds=False)

kanmarker =pcr( p678, p666, template)



In [3]:

    
from Bio.Restriction import SbfI

vect = pYPK0.linearize(SbfI)



In [4]:

    
asm=Assembly([kanmarker, vect])
asm









    Out[4]:





Assembly
fragments..: 1741bp 5766bp
limit(bp)..: 25
G.nodes....: 4
algorithm..: common_sub_strings



In [5]:

    
seq = asm.assemble_circular()[0]

pYPK7 = seq.synced(pYPK0)



In [6]:

    
pYPK7.stamp()









    Out[6]:





cSEGUID_OzTYGqLHmK4hKgFANunZ7k9JJUs



In [7]:

    
pYPK7.locus="pYPK7"



In [8]:

    
pYPK7.write("pYPK7.gb")









    




pYPK7.gb

DOWNLOAD



In [9]:

    
from pydna.all import *
reloaded=read("pYPK7.gb")
assert reloaded.cseguid() in reloaded.definition



In [10]: