variant_dic[variantID].chr=row[1]
variant_dic[variantID].strand=row[2]
variant_dic[variantID].cdsStart=int(row[5])
variant_dic[variantID].cdsEnd=int(row[6])
variant_dic[variantID].exon=[]
tx=1
for i in range(len(chr_start_list)):
exon=EXON(variant=row[0],chr=row[1],strand=row[2])
exon.number=i+1
if int(chr_start_list[i])>=variant_dic[variantID].cdsStart and int(chr_end_list[i])<=variant_dic[variantID].cdsEnd:
exon.start=int(chr_start_list[i])
exon.end=int(chr_end_list[i])
exonlen=exon.end-exon.start
exon.trans_start=tx
exon.trans_end=tx+exonlen-1
tx+=exonlen
elif int(chr_end_list[i])>=variant_dic[variantID].cdsStart and int(chr_start_list[i])<=variant_dic[variantID].cdsStart:
exon.start=variant_dic[variantID].cdsStart
exon.end=int(chr_end_list[i])
exonlen=exon.end-exon.start
exon.trans_start=tx
exon.trans_end=tx+exonlen-1
tx+=exonlen
elif int(chr_end_list[i])>=variant_dic[variantID].cdsEnd and int(chr_start_list[i])<=variant_dic[variantID].cdsEnd:
exon.start=int(chr_start_list[i])
exon.end=variant_dic[variantID].cdsEnd
exonlen=exon.end-exon.start
exon.trans_start=tx
exon.trans_end=tx+exonlen-1
variant_dic[variantID].strand = row[2]
variant_dic[variantID].cdsStart = int(row[5])
variant_dic[variantID].cdsEnd = int(row[6])
variant_dic[variantID].exon = []
tx = 1
for i in range(len(chr_start_list)):
exon = EXON(variant=row[0], chr=row[1], strand=row[2])
exon.number = i + 1
if int(chr_start_list[i]
) >= variant_dic[variantID].cdsStart and int(
chr_end_list[i]) <= variant_dic[variantID].cdsEnd:
exon.start = int(chr_start_list[i])
exon.end = int(chr_end_list[i])
exonlen = exon.end - exon.start
exon.trans_start = tx
exon.trans_end = tx + exonlen - 1
tx += exonlen
elif int(
chr_end_list[i]
) >= variant_dic[variantID].cdsStart and int(
chr_start_list[i]) <= variant_dic[variantID].cdsStart:
exon.start = variant_dic[variantID].cdsStart
exon.end = int(chr_end_list[i])
exonlen = exon.end - exon.start
exon.trans_start = tx
exon.trans_end = tx + exonlen - 1
tx += exonlen
elif int(
chr_end_list[i]
) >= variant_dic[variantID].cdsEnd and int(
