Ejemplo n.º 1
0
pCAPs_EcoRV_ScENO2tp = (pYPKa_EcoRV + ScENO2tp).looped()


ScRPE1            = pcr( primer[556], primer[557], Dseqrecord(sgd.cds("RPE1")))
pCAPs_AjiI_ScRPE1 = (pYPKa_AjiI + ScRPE1).looped()

ScRKI1            = pcr( primer[555], primer[554], Dseqrecord(sgd.cds("RKI1")))
pCAPs_AjiI_ScRKI1 = (pYPKa_AjiI + ScRKI1).looped()

CiGXF1            = pcr( primer[553], primer[552], Dseqrecord(gb("AJ937350")))
pCAPs_AjiI_CiGXF1 = (pYPKa_AjiI + CiGXF1).looped()

from pYPK0 import pYPK0 as pCAPs_pSU0

pCAPs_pSU0_E_Z, stuffer = pCAPs_pSU0.cut((EcoRV,ZraI))

ypk_primer = parse("/home/bjorn/Dropbox/wikidata/ypk_primers.wiki")




#ScPDC1_PacI-ScTKL1-ScRPS19b_PacI

A_ScPDC1tp_b   = pcr( primer[167],   primer[567],   pCAPs_ZraI_ScPDC1tp)
ScTKL1         = pcr( ypk_primer[8], ypk_primer[9], Dseqrecord(sgd.cds("TKL1")))
C_ScRPS19btp_d = pcr( primer[568],   primer[166],   pCAPs_EcoRV_ScRPS19btp)

circular = Assembly((  A_ScPDC1tp_b,
                        ScTKL1,
                        C_ScRPS19btp_d,
Ejemplo n.º 2
0
#                              RPS19atp_ScRKI1tp_TPI1tp
#                                                TPI1tp_CiGXF1_ENO2tp

from pYPK0_PDC1tp_ScTKL1_RPS19btp   import pYPK0_PDC1tp_ScTKL1_RPS19btp   as cas1
from pYPK0_RPS19btp_ScRPE1_RPS19atp import pYPK0_RPS19btp_ScRPE1_RPS19atp as cas2
from pYPK0_RPS19atp_ScRKI1_TPI1tp   import pYPK0_RPS19atp_ScRKI1_TPI1tp   as cas3
from pYPK0_TPI1tp_CiGXF1_ENO2tp     import pYPK0_TPI1tp_CiGXF1_ENO2tp     as cas4



cas1  = pcr( p167, p647, cas1)
cas2  = pcr( p648, p651, cas2)
cas3  = pcr( p538, p621, cas3) 
cas4  = pcr( p419, p166, cas4)

pYPK0_E_Z, stuffer = pYPK0.cut((EcoRV, ZraI))

#print [cas1, cas2, cas3, cas4, pYPK0_E_Z]

a = Assembly([cas1, cas2, cas3, cas4, pYPK0_E_Z], limit = 61)

seq = a.circular_products[0]

print seq.small_fig()
    
seq=seq.synced("tcgcgcgtttcggtgatgacggtgaaaacctctg")

pYPK0_T=seq

'''
# coding: utf-8