File: ZK632.4_Wildtype.ape

Comments
>ZK632.4.1 unspliced + UTR + 2000 upstream + 2000 downstream; +ive strand; Sequence: 5940 bp
>Deletion size = 1382 bp
>ZK632.4 sgRNA #1, Chr III, TCACTACTATTTACTCCACG; cut=9806006; strand=-1; GC=40; 3'GG=no; folding=-0.0
>ZK632.4 sgRNA #2, Chr III, GGAAGTCTTGCATTAGATGG; cut=9807368; strand=-1; GC=45; 3'GG=yes; folding=-2.2


Features
riok-3_Unspliced_UTR	gene	reverse	1..1497
 

ZK632.4 SV F	primer_bind	forward	937..958
CTCATCAAGCTTCGCATAGAGC

ZK632.4 Upstream Homology Arm	misc_feature	forward	2040..2489
AAAACAGTGACTAGCACTTTTGTATGTAATTGAAATTCCAAAATTCCAATTTTTAGCTGAAATAACGTGGAAGCTATAGCATGGCAAGTTTAATTTTTAAATACAATCATTGCGTAAAACTGTGGTGAATTATATAAAGACATAAAAAGATTTCTGAATTAATCAATAATCAGACGCTTATTTGAAAGACTTTCGAGGGCTCTTGGTGATGGTGTGAACGCTCGGAATGCAAGAAAATCATCAGAAATATTAATCTTGGGACGTTCAGCGTCATGTGTAGCTCCAATGAAAACGACTTCTCCTCGATTCAATACTTGTGATGCATCTCCCAATGTAACTGTTGCAGTACCATAGAGAACCGTCAAGACAGAACATGATTCGGAGTAAGGAAGTTGGTAGATCGATCCAGCGGGTCCTTTGACTTCCTGCACCCAGAACTCATCAATTCCA

Left Deletion Flank	misc_structure	forward	2460..2489
ACTTCCTGCACCCAGAACTCATCAATTCCA

ZK632.4 sgRNA #1	protein_bind	reverse	2490..2509
CGTGGAGTAAATAGTAGTGA

ZK632.4 WT F	primer_bind	forward	2955..2976
GAACCTGTGCAGAACTCTCTCC

ZK632.4 sgRNA #2	protein_bind	reverse	3852..3871
CCATCTAATGCAAGACTTCC

ZK632.4 Downstream Homology Arm	misc_feature	forward	3872..4321
AGCCATGCTAGAATTTCCTTTGGGTCCCCATGCGTAGTTATTGACAGTGCACTTTAGCTTCAGAAGCATCTGAAAACATGAATTATGGAAGAAATGTTTTGAGAGAACAGATTATGTTCGAAATATGAGTTAGGGAGAAAATAAAAGATATAATGCATCAAAATGACGGTAAACGACTGATCTCTCTAGTTTTCTCTGATCAACGCATGCGCTAAAATCGACACGTGACTAAATATAATCAGTCATAAGTTGACCATAAGACAAGAGAAAAAGACTTCCGAACTGGAAGACACGGAATACATATATATGACCGAGAGGCTCGGAGACGCAGATTGAAAACGCTGAGATCAGAACTATAAAACGAGTGCGACCGTCGACTTTTTTCATATCTTGAGTGGGTATGCGTGTGAGATTGCGTCAACGTGACTGCCTAAACTAATTGTAGAGAAA

Right Deletion Flank	misc_structure	forward	3872..3901
AGCCATGCTAGAATTTCCTTTGGGTCCCCA

ZK632.4 SV R	primer_bind	reverse	4920..4941
GGCGTGCTCTACTAAACTCCTC

gtap-2_Unspliced_UTR	gene	forward	5030..5940
 


formatted sequence

        1 cgtcagtgaa aaattcccat tccacgtttt tgagtcttgg tgcggcaaga ccttgatctc
       61 cgagaaatga catgacaaga acattgcgac gaactttgac aggttgtgga cacggaagtc
      121 catgtttcgc cattcggctc aagttcataa actctctttc tgcccaaatc ttgagaacac
      181 cacgcggatt tttgaagcgg aaatcgtctt ttacgtactc tgagcgattt ttgaactcgg
      241 acagtgtggt tttgtatact ttgatggcat agctggtcgc cgagtcttga gcagcgtgaa
      301 gaaccgccga ttcttttcca gttgcgataa ttccatcgac agaatcaaat actccttgat
      361 tgatccattt aaggagaaga agacgtgtgt cactgtcaac agaagtatcc attgttgctt
      421 tctcttcttt atccttattt ctcatttgac gcttcgattc actttttcca aatgccatca
      481 gtttgttgaa aactttattg ttgagcttgt cgccgaccat atcgcctgtt ggaagggtgt
      541 tccgatccta aaacgaataa tctctcatga gaattagata caagtataca ctacggggca
      601 cgtagaaaat gcacattttg aaatcgagat gcaatcgtgc tccacgatta agcgaaaagt
      661 tccgccccta agcggcaaat taaaacattt tccaggaatt cttcgttttt tttcagctgt
      721 ttttcgttta aatttatggt ttcaccacca ctacctaacg agacccaacg tttaggggcg
      781 gagcatgact gtggagcgcg gtacattttt ctgcgtttca ataacacgta cattgaaagt
      841 tttatcagca ttacgacgcc cactgacacc agtatcatgc tttgttcgtg aagtactggg
      901 accttctggt cgaagacgag aattcgttgc attttcctca tcaagcttcg catagagcat
      961 atcagttgca gcctgtctca aagcatcatc atcttcattc tcagaatctg tttcctgcat
     1021 tgtttttgga tgataacggt caggtgtgaa gtgaaccgaa ctcgaagatc caacagcacg
     1081 agcaacatct gcttctcggt caaaatggcg ttgaagagca agtgcaactt cttcatcagt
     1141 cattccttca gtatttatgg ggagttgatc atcagaaact gaagtatcac cgaacatttg
     1201 atcgagttgc tggaatttaa tattatttaa aagttttttt aaatttatat accttcatgt
     1261 atctctcttc ttccaatttt tcttgaacac tcagatcctc aataaattct tcgctcagga
     1321 catccgcaaa actgactatc ggttcttcag cagtttccta aaattggaat ttgcttaaaa
     1381 catttaaatt tctcaaaacc aacctcattt ttgccccacg cgttcttctt ccacggatta
     1441 ttctcacaat tcgccattgt ctggcttgaa agcttggaga aaacggcaaa ctatctactg
     1501 aaacgaaatt aaatcaaaaa atggcaattg tattgttgaa taattgaaaa tttgtccagt
     1561 tgtggaatgt ttcgcaatgc aatcaatatt tgtcctgtca gagggacgag ggtgtagttt
     1621 gaacggccat ggccatatgg tctgctaaat gtttagcaga ccatagctat ttagcagacc
     1681 caagcatggt atgctaaata tttagcagac catagctatt tagcagaccc aagtatggta
     1741 tgctaattat ttatgttagg gacgtgaagg acacaataat ttagcagaac caatacaaaa
     1801 cctttttttg ttgataattg ttcaatttta gcattttttc aatataaaat acaggatttt
     1861 acaataaacc tccgaaaatt attgaataga acattatttg aaattttaac gaccggccag
     1921 gcagcgctaa tcgtaagaaa gaaggaagta atgtaaacaa tgaataaaaa tcctcaaata
     1981 attattaaga attgaaaaat aaggaataaa aatttattat gaacaaccct agataatgaa
     2041 aaacagtgac tagcactttt gtatgtaatt gaaattccaa aattccaatt tttagctgaa
     2101 ataacgtgga agctatagca tggcaagttt aatttttaaa tacaatcatt gcgtaaaact
     2161 gtggtgaatt atataaagac ataaaaagat ttctgaaTTA ATCAATAATC AGACGCTTAT
     2221 TTGAAAGACT TTCGAGGGCT CTTGGTGATG GTGTGAACGC TCGGAATGCA AGAAAATCAT
     2281 CAGAAATATT AATCTTGGGA CGTTCAGCGT CATGTGTAGC TCCAATGAAA ACGACTTCTC
     2341 CTCGATTCAA TACTTGTGAT GCATCTCCCA ATGTAACTGT TGCAGTACCA TAGAGAACCG
     2401 TCAAGACAGA ACATGATTCG GAGTAAGGAA GTTGGTAGAT CGATCCAGCG GGTCCTTTGA
     2461 CTTCCTGCAC CCAGAACTCA TCAATTCCAC GTGGAGTAAA TAGTAGTGAT CCATCGTCCA
     2521 GTTCATTTGG AATATATTTT GGAAGCAGGG TCTCATCATA ATTCAACATT TCAACCAATG
     2581 ATTCTACATC AATATATTTT GGTGTTAATC CAGCTCGAAT AGTATTGTCA CTGTCTGCCA
     2641 TACACTCAAC ACAATCTCCT TTCAAATAAG CATGTGGCAT GTTTGGTTCT AAAAATGTTG
     2701 CCTCTCCAGG TTGTAATTTG AAGTAGTTCA AGAAAATTGG AGCAAATACA CCAACATCTC
     2761 CAGGGTACAA TGTGAAAAGG TAGACAATTA TTTCATCAAG AGCCGTTTTG TTTTctgaaa
     2821 tttagtaatt aaaaagaaga tattcattca aaaatatcgc ttacCATGTC CTTGAATTCG
     2881 TCTGGCAAGT TTATCAACAA CTATTTGAAG TTTTTCCTTT GGAGTTCGCC AAATTCTTGA
     2941 GAAGATCTTT TTGAGAACCT GTGCAGAACT CTCTCCATAA GATCCTAAAC TGTCGATTTG
     3001 ACTTTTCTCT TCTTCGGTGA GCAATTCTTG AATTTCAGAG TACActgaaa aaaagcaaat
     3061 tttaatgctt ataatctaat tgtgataatt acATTTCAGA TATTCACTAA TTTGTGAATG
     3121 TTGCCGAAAT CCGGAAAGAA GCTCGAATTC AGTCAGAGCA ATTGCGATCT CTGGTTTGTG
     3181 GTTGTCATCT GGATAGTTCT TCGGATCTGT AGCATGAAGA AGTTTTCCTT GTTCTTTTGT
     3241 TGGATGAATT TGGATTGAGA GTGGTCCAAG AACGGAAAGC ACTTTGAAGA GGAATGAAAG
     3301 GTTGCctgaa agaaataatt aatatttatt gacaaggtca tgttgttctt taaggaattg
     3361 aaatgtatca attggcttga aatttatgtc attcggaagc tgacatcgaa ttggatattc
     3421 ctttttgctg atctcttaac ttccaaatta cataagtttc aagccagtta gaccattccc
     3481 aagccagaac agtaaagaat atttatttta ttcacCTTTT TCATGTTTTC CCTGTAACTC
     3541 TGGCGATGTA GCCAAAAGTT GTTTAAGAGC GATGTCTTTT TCGATGACGT GGGCCGGCCC
     3601 GTTAGCGTGA GTTCCCACCC AGAActgtaa taataaagat gatgaaagag aacgtgtttc
     3661 gggagtgatg taggccgatc tgatcaggtg atcgacgaca caatcttcga aagtcacgac
     3721 ataaggtcag aaaccacggt aagacgccac aaatagattg agaatcgctt taattagaac
     3781 ggaaatagat acatgtttca ttactcacTT CAGCGTATGG TTTGTCTTTG TCAAGATTTG
     3841 GAATATGACC ACCATCTAAT GCAAGACTTC CAGCCATGCT AGAATTTCCT TTGGGTCCCC
     3901 ATGCGTAGTT ATTGACAGTG CACTTTAGCT TCAGAAGCAT ctgaaaacat gaattatgga
     3961 agaaatgttt tgagagaaca gattatgttc gaaatatgag ttagggagaa aataaaagat
     4021 ataatgcatc aaaatgacgg taaacgactg atctctctag ttttctctga tcaacgcatg
     4081 cgctaaaatc gacacgtgac taaatataat cagtcataag ttgaccataa gacaagagaa
     4141 aaagacttcc gaactggaag acacggaata catatatatg accgagaggc tcggagacgc
     4201 agattgaaaa cgctgagatc agaactataa aacgagtgcg accgtcgact tttttcatat
     4261 cttgagtggg tatgcgtgtg agattgcgtc aacgtgactg cctaaactaa ttgtagagaa
     4321 aggtcgtaaa ttttcagaca aatcaaatga ttgtcggaga cagatttatg ggtgggatca
     4381 taagagagag atagatcgta ttctcggtga ttatttacac gatgaacgca cgcaacatgg
     4441 cgacgacaac atgcggcaaa actgagaaat tccttgatcg ctgattttga agcaggttaa
     4501 tgccggaagt ggtttttaaa tacaaaaatc gggacatttc ttagccaatg aaggtcacaa
     4561 aagatcgaac aacaaagtgt aaattaatga aaaattattt cagagaatca gaatagaact
     4621 ttgatgaaag tttatttatt tttgaaagca acaagttttt tcacaaaaaa tggtttttac
     4681 aggctctatg gaaacaatgg aaaaaatgtt ccgtagaagt gcatgttcta atattcaata
     4741 gtcgagaact atgagtaaag atgtaaattt tataaattta aattcaaaca atacaaaatt
     4801 tacagtagca taaaatattt ttaaaaaact ttatataaat ggcaactaat actctaaaaa
     4861 cttagtcata atggtggatt catttctact gagactgatg ttccataaag tgtgatgcag
     4921 gcgtgctcta ctaaactcct cctaatgttt ttttgttgtt ttttcaattg ccactgtttt
     4981 tttttctaat ttcaataaaa ctgaatcctt tttaaattgt ttttttcaga aatgctaagc
     5041 acattaagct ttctaataca tggggaacaa aatgtgcaac agtgccaaac aatatcagat
     5101 ttggagtgtc tctatctgat caataaaaat cagcccttac gagactcaaa cgggaatcct
     5161 gtaggtttga caattcttca aaagaaacat cttggagctc aattcaaaat ttcagttgac
     5221 agctcacgaa ttgacggatg atttgaatga acggctggtt actctaaagc tagaagcatt
     5281 tcgcccggtt gtctctgaag tcctaggtat acatctatag tttaaagcaa tttttgtttg
     5341 agtttaaata tttttagatc agctggaaga acaggatgat gctctccact attttgtgct
     5401 ggtcgcaact tcccggttgt cagatgagga ttttgagaat agcttgaaag aagtctcgtt
     5461 gtcccaaaaa ttggtaaatt tttattttca caaattttgt aaggtttttc tcgagaaatc
     5521 ttctagaaaa ctgctcattt ttatattttt caatcccaga ataaattaat tcaaattaca
     5581 gatggtacga atcgatggtg aatataaata cagattatat tcaaaaccaa ttgtacgaaa
     5641 taacattcca caattagcat gggatatttc tccagcactg agaacacgca aagtggcaga
     5701 aaaagatgag atatcaccac gtaagaaata ctaaaaatgt tttttaaaat aacactatga
     5761 aatttcagca aacaatacag cgaatgtata tccagttgat gattggggat tgatttcacg
     5821 ggaattcaga tctattctct catgtgaaga gctcatttta agtgctcgag aaggccaatc
     5881 aatcgaattt tttcatcttg acaatcaggg attctacaga aatctacttg atatgcatcg
//

plain sequence
 
