File: rnst-2_Wildtype.ape

Comments
>K10C9.3.1 unspliced + UTR + 2000 upstream + 2000 downstream; +ive strand; Sequence: 10314 bp
>Deletion size = 4597 bp
>rnst-2 sgRNA #1, Chr V, CTGGGAAGTGAGCAGTCTAC; cut=1060677; strand=-1; GC=55; 3'GG=no; folding=-2.1
>rnst-2 sgRNA #2, Chr V, AGCGTACCTTCTTATCCCGG; cut=1065254; strand=-1; GC=55; 3'GG=yes; folding=-0.0



Features
rnst-2 SV F	primer_bind	forward	251..272
GTAAGCTGACATGCCTTATGCC

rnst-2 Upstream Homology Arm	misc_feature	forward	631..1080
GTGTTTATTTCCTGCTTTTTAATGATGGGTGAAAAGTGGCTCAGGTTTTTTGACGGAAAATTTCACATCAACTTTTGAAATTTCTACATTACATTTGATCATTTTAGTTTGATATTAGCCGCTATTCTTGGTGGCCGAACTTTTTCGCAATTTCTAGGCCACGCTGAGTCGCTATCAAACTTTCTGTTTTCAGGTCACACTATCTCTGTTTGTTATCATTTATTGTTTTTTCTTTACCTACTTTCTTGATAAGATATATGTATCATTCTTTTTTGCGTTTCTTCTGCGAGGTCAAATATGTTCTGTTTTCCTAATAAATTAGTTTTCAAACCAAAAACCATCCTATGTAGTTGCACTTAATTAAAAATTATCTGGTCTTAAATCTGAATGGTCTCAACAATAAATCATGTGGCAGCTGTTAGCACCTGTCACTTGACACTCCTTTGTCCA

Left Deletion Flank	misc_structure	forward	1051..1080
AGCACCTGTCACTTGACACTCCTTTGTCCA

rnst-2 sgRNA #1	protein_bind	reverse	1081..1100
GTAGACTGCTCACTTCCCAG

str-67_Unspliced_UTR	gene	reverse	2994..4997
 

rnst-2 WT F	primer_bind	forward	5532..5552
CGACTCTATCGATGTGGCTGG

rnst-2 sgRNA #2	protein_bind	forward	5658..5677
CCGGGATAAGAAGGTACGCT

Right Deletion Flank	misc_structure	forward	5678..5707
TTTAAGCCTCAAAATTGTCATGCTAAAAAA

rnst-2 Downstream Homology Arm	misc_feature	forward	5678..6127
TTTAAGCCTCAAAATTGTCATGCTAAAAAATTAAATTTCAGACCAAACAGTTCCTTCTCGGTGACATTCGCTTGTGTCTCAACAAGGACTTGACAATCCGAGACTGTCCGACTGATGGAAAACATCCGAATCGAGTCAGCAGATTCGAGAGATCAATTGGCAGAAATAGACGCGGGCCACCACTTCCAAGCTTCCAGGTTGGTTACGATTTAAAATTTTGTTTGACCTTTTCCAAAATTCCGAATCCTTCATTTTTTGTTGGAATTTTGCAATTTAATAAATTGCCGATTCAAGATTTTTCGGCAATTGACAGTTTTCAAAACTCTCAGACCAAATTTTTCTCGAGATACTTTCGGATTTTTTATTCGAATTTTTCCACTGTCAAAACAAAAAATTCGGAACTTTTACATGGTGCCTAGAAATATTTATTGAACACAAGTATGCAGCGGA

K10C9.7_Unspliced_UTR	gene	reverse	6088..7974
 

rnst-2 SV R	primer_bind	reverse	6855..6876
CGGAACTTTGACCTCCTTCTCT


formatted sequence

        1 ttttcaaacc tttgtaaatc aaagtggcct gaacatttta ctctagttct aattttctga
       61 aatgctgcta ctttgtattt gttgacaatt ttaaattacc tcgtttaaat atcagtcgtt
      121 tcattacagc aacaagtttt aaaaaacttg taaaaatgtt tgattttgtg ctttttgtga
      181 ttacactttg gggggtatca tattaactta acgtcgtaat aatttttgtt tttatgttaa
      241 gatttacaaa gtaagctgac atgccttatg cctaaatatc tacgtttttt ttaaataacg
      301 aagcagacat gcttttttct atatctctaa aaattacttt tgcgccaaat taaaaatgta
      361 attatgcacg gttgaactta tctaaaaact gtatttcctc tattagactt gcacccttac
      421 gagtcaatca aaaattagtc ttgcatgcaa aagtaataga ggcaatacgg ttgtttaatg
      481 ttgtacaatt atcttaaata actacctaat tcaaattatt tcatttaaag ttttgataag
      541 ttagggggtt tcaagtaact tcaatcactt ctgcagagga aaatgtttga aaacaataat
      601 ttaaaacaag ttcaaaattt gaaaatatca gtgtttattt cctgcttttt aatgatgggt
      661 gaaaagtggc tcaggttttt tgacggaaaa tttcacatca acttttgaaa tttctacatt
      721 acatttgatc attttagttt gatattagcc gctattcttg gtggccgaac tttttcgcaa
      781 tttctaggcc acgctgagtc gctatcaaac tttctgtttt caggtcacac tatctctgtt
      841 tgttatcatt tattgttttt tctttaccta ctttcttgat aagatatatg tatcattctt
      901 ttttgcgttt cttctgcgag gtcaaatatg ttctgttttc ctaataaatt agttttcaaa
      961 ccaaaaacca tcctatgtag ttgcacttaa ttaaaaatta tctggtctta aatctgaatg
     1021 gtctcaacaa taaatcatgt ggcagctgtt agcacctgtc acttgacact cctttgtcca
     1081 gtagactgct cacttcccag cattccagta cgtacattat tgcgttctgt ttcttggtca
     1141 gatttatttt cagtcgataa tataatccgt attgtccttt ttctgctgtt ttcaaataat
     1201 tttttggatt ttttaactta ttccaatact tactttttaa catcttatta aaatgaaatt
     1261 ttagaaacca aatttaccaa atttttcctg taattttgaa aatctaaccg aaaaattcca
     1321 aaaagtttta ttgatgtttt tttagattat tgaaagtttt gttttttgca atttggcaat
     1381 cttttgattt ccataaatca aaaaaataca attttttaaa aatttaaata aaatattttt
     1441 tgtaggcaaa aatattcaga aatgtatatt ttcaatactt tttctcgttt ttttgtgtta
     1501 ttttttgtaa aacttcctta tatttatcgc aaaccaagag catttatagg atgagttgga
     1561 ttttccaaaa taaaacttga agttttaaaa ttttgaaaaa aattgaaaga aaacgattta
     1621 aaaaattttt caatgaaagt tacaattaac tctcaaagta attttgcaat ttgaagataa
     1681 aattaaaaat ctcaattttg ttaaatttga aatcaggtga aaatttggag tcaaaaatta
     1741 aaaattagtt acagaattta ttagcatttt aaaacattct aaatttttcc aatttaactg
     1801 tatatattga aattgtagta gactttgtgg aatttttgtc aaattttgtt aaatagtttt
     1861 caaaataatt tgcccaaaag gcggaaaaat tgaaacaaaa agtgaacctg tgtacctaaa
     1921 aatatcattt gatttttttc tgcttctgat aatatgctta atctattttt ttacttctaa
     1981 taatcacgca agatttccag aaATGAAACT TCTCCTTCTT CTCTGCATAT CCTGTATACC
     2041 CCTAGCCTAT TCTCATGATG GTGAGCCATT TGACTACCTA ATGTTCACCA CAATCTACCC
     2101 AACCGCCGTC TGCCGTGCCG ATGATGATTC AGTCCCTGAA TCCTGTGAGA TTCCAAGTGG
     2161 TACCCCTCAA TGGTCAATTC ACGGATTGTG GCCAAACTTT GAGAATGGCT CGTACCCACA
     2221 AAATTGTCGT GGGACTCCAA GACATTTCGA TGAGAATTTG ATAAAATCAA TTGAAGATCG
     2281 ATTGGTgtaa gttacaaaaa tttggaataa actttgaata tcacaacatt ttaaattttc
     2341 agAGTTGTCT GGCCAAACCT CTACCCTAAA AAGACGATTC AATCCTTCTG GAAACACGAG
     2401 TATGATAAGC ACGGGACATG TGCTCAAAGT GAGAAGCTCT TCGAGTCAGA GTTGGCTTAC
     2461 TTCACAGAgt aagttgtttc taattaaacg atgattttga gttttacttg tagatacatc
     2521 tactgaattt aaactctttc aaaactttga aaaccaaaaa agaagaccta gttttggcat
     2581 ttttgcgctc tccagctata ttaattggga tttctttctt ttttttattt tataatttga
     2641 aacatgattt ttttgaggca gttcccataa aattatttct gcttatcaag ttttctttac
     2701 tgttaaagaa ttgtgtgaaa aattggctat tttttaagta gtaaaaacta ggctactcat
     2761 tcgcgcggaa attcaaaaaa aattcagctc tttttatgtt ttgttttttt tcttgcaaaa
     2821 ttaaacaaaa tcataacaaa taacataaca aataacaata ttcggtaaat atataaagca
     2881 tataaagaaa aaaactgtat tcattcgaat attaaaaaaa taatgatttt atgttaattt
     2941 caataagttt gatgaaataa ttatttgtga agttgatgag atggttcaat tgtctataca
     3001 gttgaaaccg caactgctga actgggcact gctgtgttat tcttcatccg gcaacatata
     3061 acttctgtaa taaaaacaat tatattagat caatcattat gccataactt ttcaaaaaaa
     3121 ttttgtattc cgaaacaatc atcataaaag cgatactatc aaatgatggg tagaatccaa
     3181 caagtgagta caagttacca gtttgccaat tgacttcaag ttcgaaaatt ggtgcaatca
     3241 atggggtcat caatatcggc ccagttggta ttattaagaa aatagttggt ccaatagttt
     3301 gcataacgag agcaaggaaa aattgatatt caagtttttg attttgagtt gagaatttct
     3361 tcagctcttt tttcatattt cgatgcattt gaacacatgt aaatataata atgcaatatg
     3421 aaaaactgat gagaacaatt gcgaagagta agaaaattat acccttcgct cgaattgagc
     3481 catcagctgc atatggtacc attgcatatc gtggcagttc ggatacttcc agtgcgtagt
     3541 tttcaaaaat ggcttttctg taatgaataa tttgagataa aattaaaatg agaaactttg
     3601 gtttaaaatt acatttatgt aaagagatat agcgaccgac attttgcgag tcgaacaatt
     3661 tctaaaaatg attattgaat tttggtaaac cctttttttt cagttaaatg ataaacgaaa
     3721 tgtaattaca gcaacaaaaa aaaactcaaa aatgatacca cgtttttaaa caattgggca
     3781 aagcagtgtt tgaaaagtgc tagttcaaac ctttactgtt agctctagtt tactgtattt
     3841 ttgaaaaaga aaacgtttct agaaaaatgc tttaaagtgg actcacaaaa tgtcggccgc
     3901 tatatctctt gaccttcatg ttaagaaata tcttaacata ccgtattttg tcttgcatgc
     3961 aagactaatt tttgattgac ccgtaggggt gcaagactaa tagagactgc aagactaatt
     4021 ttcgaagatc caatagcttt atgaaattgg ccatttatcg tcaaaatttg actcgaaata
     4081 gtctaaatca tgcaaaatac atacttttct attgttttat caattatttt aacactttaa
     4141 aatttaattt agctataaaa tggcgatatt gttgaagttt tcaaaaaata ctgctggtct
     4201 ggcaagaata gggatggaag actatcaccg taagttctct attagtcttg catgcaatac
     4261 taatagaggc tgcaagacta ataaaggaaa tacggtagtt tattcagtag acaacatttc
     4321 gagcaaaaat tttttagttg aagttttctt tatgaagttc ctagtttttg agctatactc
     4381 aattacaata tacattttca accagcaaaa aaaccgaaaa catatatata ctttcgctta
     4441 cccgtgtaaa acaaatgacg aatattaaat taacatctag atttgccagt agctccttaa
     4501 tttgctcacc ttatataaga atctgtgaac tcatcagaac cacacaaata gtgtagggac
     4561 aatgcgaaaa ttgttcctac taccaaggga tataaaatcc agatgatagt tttaagaccg
     4621 tcaaaatatt tggttttctg ttcattgaat acgcacagat atctgtacac aaactgcaca
     4681 gatatgaatg aaattacaat taggtagaat tgggaccaaa ttaatatgaa aatctgccga
     4741 attttgagtg gaatatttag ttcgcataag ttgaaggaca acagcgcacc gttatagtta
     4801 tgagtaaacg gtttcatgat catttctagt cccgagaaac ttgtgctcaa aactgagata
     4861 tatatgatca ttttcttata agctccaaaa agctttttcg cgtgaaagac agtaatccag
     4921 attaatacaa agttagtact gaaactggca taaaacccaa cttttctgca aatttcagaa
     4981 aaatcgtaca atctcattct tactttttcg aagacttaac gagagaatta gagtgttcgg
     5041 cccgggaaat attttttgta tgtaatgaag aaatgaagtc tacgatttat attgtatgaa
     5101 gcaccggaaa ttaaatatat tatacaaaca ccaaccacag tctgtatcac tgaattcttt
     5161 ttttaaaaaa aatttcacaa tattattcac aagtggcgaa tgataaaaac acatgatggt
     5221 tttcaaagaa tgtaccaata aatcttaata caatttctgt ctgattggga aactatttgt
     5281 cggtgaattt tactatcgag ctttgtaaac agaacatgca cacaaattca aaattccaaa
     5341 aaatagttca ttcatttgcg cgggaatgca aaaataatca tctccttaaa aaaaatttcg
     5401 tagagttgaa aaatcattga aaaattagaa ttaaaaaaaa tatataaatc agtcttggta
     5461 agcatgaaat ttctatagtg aactaatcaa taacaagaaa tacataattt tttcagGGTA
     5521 ATGAAAGTCT TCGACTCTAT CGATGTGGCT GGAGGATTGA AATCAGTTGG ACCATCGGAA
     5581 AAACCAATCA CCTCGAGCGA CTTGAAAAAC GCGTTGAGCG GAGTCACCAG CGGAAAAACT
     5641 TTCCAATTCC ATTGCCTCCG GGATAAGAAG gtacgctttt aagcctcaaa attgtcatgc
     5701 taaaaaatta aatttcagAC CAAACAGTTC CTTCTCGGTG ACATTCGCTT GTGTCTCAAC
     5761 AAGGACTTGA CAATCCGAGA CTGTCCGACT GATGGAAAAC ATCCGAATCG AGTCAGCAGA
     5821 TTCGAGAGAT CAATTGGCAG AAATAGACGC GGGCCACCAC TTCCAAGCTT CCAGgttggt
     5881 tacgatttaa aattttgttt gaccttttcc aaaattccga atccttcatt ttttgttgga
     5941 attttgcaat ttaataaatt gccgattcaa gatttttcgg caattgacag ttttcaaaac
     6001 tctcagacca aatttttctc gagatacttt cggatttttt attcgaattt ttccactgtc
     6061 aaaacaaaaa attcggaact tttacatggt gcctagaaat atttattgaa cacaagtatg
     6121 cagcggagtt cccaaatccg aatcatcata gtatggggta gatgtctcat tgtagagagt
     6181 tgtgacagat tgagattggg tagtattcga gtaggccgga tcatatgaca ttttggagaa
     6241 gttgtcctcg gtaccaagct tcaacgacga ctttttcatg tcggaccact gggggacctg
     6301 caaaattgca tgttgaacta ggcagttgtc ggctgctgga attatgcatt cgcatacttt
     6361 gaaacgttcc ttctgtggta ggctggccgg cctgaaaccc acctgcttct cgcctttttt
     6421 ctgcatttta tgaaaatctt tagcagaagg cgaggcaggc aggcatctcg tcgcctgcgt
     6481 ccctagtaaa aaatagaatt gaactcaccg gtgtcaattt cccaactctc ggagcagtca
     6541 aatcgttgaa ttcgcttccg tgtggagacc aatccgagcc ggaagtgatc ggccaagaga
     6601 acgaactgat tatattgagc tggggacggg acaccggatc agttttagcc ttcgaagatg
     6661 gatcctgcgg agatgcgatt gcatagattt cctgaaattg tcaattagag cgctgttgca
     6721 tagtcggaac ttaccgggtt gttagcaatg aaattgagag tttcacgtgc tttggcacgc
     6781 tgccccggag tcactttatt ggggaaagtg gtctcgagaa gctttcgttt ttcctcgaat
     6841 gtcatttctt ttgtcggaac tttgacctcc ttctcttttc tgaaagaaag tttttaacat
     6901 ttttgaactt tccagcaatc tgtgctaagt gggtttacgg tagtcattgc ataggaagtg
     6961 cgatttttaa atggaattct ggatgtttca gaaaattcca gaaaattcac ggggttctgg
     7021 ccttcttcac tgaatttttc gcgctccatt gacaaggccg gacagcgcgt gggaaagtcg
     7081 tgtactccac ccggacaaat acacttagtt tgcaactgaa atcgagtcgc gacgcgacac
     7141 gcaacgcgtc gtaaatctac cctagatatg gccgagccaa aatggcctag tttggcaaac
     7201 tcttaaattt caatttatga gggaagccag aaatccgtga atatttcaga attttaaatg
     7261 aagtttccag aaagttccag aattttctca agtttcccac gtttctagaa cttattccaa
     7321 attgctattt acgcgggctt ctggctttcc tcaaattttt aaatgtaaga gttcgccgaa
     7381 ttagaccatt atcgctctgc cacatctggg gtcgatttac aatgcgttgc gtgccgcgtt
     7441 gcgtgtcgcg tgtcgccttg cgtttcgtgg ctcggttttc attgtaaatc tataggtatt
     7501 tgtccgtgtg gcgtacacga ctttcccaca ctttgtccgg caggcaattt tttgtcaata
     7561 gagcgcgaaa aatgcattga ggaaggccag aagctcgtgg tttctcgaaa aaggttaacc
     7621 aaaaagcttc aagaatggaa ttataggaat tctctagaaa cttgtatttc cctttttcag
     7681 tcatgcaaat gcacagagcc agacaaccgt aaccgtcaga actccaaaaa tggaaactca
     7741 cggctttggt tttccaaccg ttgctccgta gactccaaaa atctcgccaa acattttcga
     7801 gtgcttctgc atttccttca aacgttgcac ttcttcagat gattttcccg ctgaaaaaaa
     7861 ttaaatttaa aataaaatcc aaaaatttca aagtttctta ccggaaagtt tgcgaagctc
     7921 atcgatagta ttttgaatcg acttcatttt tctttcgttg agaagagtag ttttgcaaat
     7981 ttgaaataaa tttttttccg ataattttgt gagtcgtgga aaacgttcaa atattttttt
     8041 gcgattttga gggtgatttt caagtccacg ttttttcatt tatttttttg ataaaaagta
     8101 caaaactttt ttataaatta acaaaaattc acaaattttc agCCATGCCC CGCCGAGTTC
     8161 ATCTACCTTC CGGAGATGAG CAGCATTTCT AAATCCTCTG ATTCCACATC GCCATCTATT
     8221 TTCGGACGAA TCTGGAGCGC TATCAAAAAT ATTGGAAATT AAaatatttc ggattttgta
     8281 taatttttgc tgatttcaat aaaaaaaagg acccaacttt tgcatatgtt ttttgatgtc
     8341 cgcctgactg atgcctgcct gatgcctgtt cactgctcga ttcctcacct acctcatgcc
     8401 tacctgactg aatatttacc ttgtgcctgc ctagtaggtg tcatatgcct acccctgtca
     8461 agtctatttt cttaagtgtc tacctcacgc ttgccaacac attttagcta tgcctgccta
     8521 cgtgcctatc ttatgcctac ctcttgccta cctatacgca ttgcaaaatt tagataaaca
     8581 caaacctcaa aatcccttcc tgatgctggt cacaagtgag gattagcttt tgatagtttg
     8641 ttttttttat gtttgaaaaa aaagtttcac cccaacttaa atttgcagtt tccaaaaaaa
     8701 tttctccaaa ttttgatttt ttttaaggtg acgagagctt tttttagcac ttcaaaaatc
     8761 aaaataaatc cggataactc gcgctggctt agaaacagtg aaaattcggt ggtcagctca
     8821 gaatttgttg agccggtgaa gtttgtacct ggcacttttt ttttgaaaaa tttgaaggtg
     8881 caatgtttgg tgtttttcag aattagtaga atttttaaag cttttgattg aaacttgttc
     8941 acagatttga aattaaaatt ttttaaaatt taggcttcaa aattttcaat taaaacaatt
     9001 ttcaaaactt ggaaaacctt taaacatttt gttccccaaa ttgccacgtc acgtagaaag
     9061 gtatgaggta gctttgcagg aaggcaatta attttgcatg tacgagtagt cttgtaggta
     9121 tgcacgaggt aggcagatag gttggcttgt aggcaaaagc aggcaggcag gcaggcaggc
     9181 aggcaaaagg tagacatgat ataggcacaa aggcaggcac agctagttgg cggcaatgag
     9241 gcatgtcagt aggcacgata aaactttgta ggtagacaag tacgggttgg cacatagaaa
     9301 aatgccccaa tttttttaat ggctaaaata atatttctta aaactaactc gaggttttcc
     9361 ttaagcttgt caaaaacttc ctttttaaac atgcagactt tcttgttcat agatcatccg
     9421 aattttcaat ttattcccct tttttccctt tttaacgact gttaaacgag ccaaaacctc
     9481 ctccaaataa ctcttctaaa accgtgaaaa atattgtaaa aacgagtttc aagaatcccc
     9541 aaacttgtct cctttgggaa catttccgtg tttttcatcg agttttttat gatccagcta
     9601 atggaagttt tgttttgagt tgatgtgcgg ttattttcgt tcccagaaag tttgataaat
     9661 tgtctactgt ataatttgaa ctttgtttca catctatttt tgaaacattg ttttgtagat
     9721 cacatgaagt atacgaattt tttcgagaaa ctcagcccaa tgccgcatac ctcaaacaac
     9781 gtctgaatac aattacttga aactaatttc gaacaaaaat ttgctatgag ttgcaaaaat
     9841 tgagtaactg ttattgttgt aattttgtat tgcaaatacc aaatttaaaa aaaatttaaa
     9901 atacccagaa aataggaaaa actgcgaaaa aacgaaatta tctatttttc tgcaatattt
     9961 tgaattacca tacaattatt ttgatacatt tttaaaaagt ctgaaattta tttgggatca
    10021 tgtgaaaaga ctaggatttc tgtgtagcca gcaaaacgtc tgccgcacca gccttgcggc
    10081 gacctccgcc tgcatgtgcg tcgcggagcc cggaaagtga tggccgccct ttcacattat
    10141 gtggtataaa cgccaaagat tcaacttctc gccaaagtgc agaaatgagg cgagaggccg
    10201 gcaggttgga ggtaggtgtc aggccctaaa accgcgcctg cctcctatgg aagctctagt
    10261 gttatcatgg ttttaggtca tgccagacca ggggtctgcg gcaaatggaa aaaa
//

plain sequence
 
