File: srpa-68_Wildtype.ape

Comments
>F55C5.8.1 unspliced + UTR + 2000 upstream + 2000 downstream; +ive
 strand; Sequence: 6737 bp
>Deletion size = 2300 bp
>srpa-68 sgRNA #1, Chr V, GAAGAACAACAAGGACTTAC; cut=12289364;
 strand=-1; GC=40; 3'GG=no; folding=-0.0
>srpa-68 sgRNA #2, Chr V, CAGGGAAATGACAAACGACG; cut=12291644;
 strand=-1; GC=50; 3'GG=no; folding=-0.0


Features
rskd-1_Unspliced_UTR	gene	reverse	1..1694
 

srpa-68-1 SV F	primer_bind	forward	1129..1149
AGGCTTCTATAGCATGTCGGC

srpa-68 Upstream Homology Arm	misc_feature	forward	1991..2440
AACTTGAATTCACAATAAATATCTTTATTAAAACGAGACTCTGATTCCGAATAGTACGAAACGCCGTTCCAATAAAAAACGAAGTTTCCAAGAAGAGATGAGGGCAGGGGAAAGGTGTGGATGAAGGTATCAAATAAATACCTTAGCTATTTTTGAATCAAACCATAAAAAAAGAGCAAAAAGTCTGGGGTAGAAATGAATATGGTATCACAAGAAATTTAGAGAAATGTTACTTTGTAACAAAATCTCAGAAAATTGAAGACAGGAAAGAACAGAAGAACTGTGTGAAAAACCAGAAAAAAAACATTAAATATGAGAAACTGGGCCGATGCAAGAGGTATCTATGGACAACGAAACAACAGTAACAAATGATAATTAATACTCTATTCAACGTCTTCGTAGTCTTATTTATTTCCCCAGAAACTCTTTTTCCACCCGGAAAGCATTCCA

Left Deletion Flank	misc_structure	forward	2411..2440
AAACTCTTTTTCCACCCGGAAAGCATTCCA

srpa-68 sgRNA #1	protein_bind	reverse	2441..2460
GTAAGTCCTTGTTGTTCTTC

srpa-68-1 WT F	primer_bind	forward	4199..4220
TACTCTTTCGCTTTCCTGGACG

srpa-68 Downstream Homology Arm	misc_feature	forward	4741..5190
AAAATATTGAATTTAAATATTTAAATGTTAATTTTACATAAAGAACTAAGTTTCTTTGATGAAAAAATAAAAAAGAACGGAAATATTGGACACATCGGCAGAAAGCAAAAACTGCGTCAGCACAGAAGCGCGCCAGTGACCGCGCTGCTTGCGCACTCTCCGATGAAATTTGCGGTTTTTCAAATAAATATAACTGCAAGAAAATCCAAAATTACCGTACTTTATTTTACGTTGTATTTAATGTTTTTTTGTTTTCCAATAATGATAAGAACAGAGATGAGCACAGAAATCTATACTTTTCGTTTGAAAATTACGTTAGATAATCTATTATAAATAATTCAATTGTAATTTAAATGGCAAATCAATTGGTAATTGATCAGGTTCTCATTCATACAAAATTTTGCTCAATATTTCAGAAAACATCGATTTAGTTTGATCATTTGGACTAAT

Right Deletion Flank	misc_structure	forward	4741..4770
AAAATATTGAATTTAAATATTTAAATGTTA

srh-16_Unspliced_UTR	gene	forward	4940..6737
 

srpa-68-1 SV R	primer_bind	reverse	5311..5332
CAAACGCCACCGATTTCAGTAT


formatted sequence

        1 cagctctttg agccgttgcc actagctgcc cagccgtaac taagtagtca gctggagtct
       61 cttcgatttc tgaatttata tatttttgaa ttcgccaaaa ataagtgttc taccaatatt
      121 atgatgcgta gatcctcgta atcttgggaa gagtcgtttc attgagcttt tccttgcagt
      181 tcgttgctct tcgtttgaag tttcggaagc tatagccacg tccggaaatt gaaagtcgtc
      241 gccagtctga aaaatgagtg gatatttcaa aaactatttt actatttaat tgaaaaatat
      301 tttttatttc tgattagatt tttataatac attagacact acaaagaaaa agttcagtga
      361 atacatggat atgacagaac ttattgaggt gaaactgaag tgaacgaatc ttttgagcga
      421 aaataataat ttagcaagtg ggactgactt gttcgtgtgt cggttccaag agagcagcgt
      481 ggttcggtga atcggaatca ctggaaataa attattttat agaaatgtgt acacagagat
      541 actaacctgg aatttgtatt gggttggtcc aaaattgaag aagaattgtc ataaaacacc
      601 tcgtttccag tgatttcgtg tgccgtatag gttttttctt tggctttctg aaatgataaa
      661 tatgttgttg agtggaagga aaagtttcaa aatggtcaag agagtttcga tgaaattcgg
      721 tttgtactcg tgccagtctg ttccctggag actactatgg gagtcttcga aaatatggaa
      781 atattcgaga agttttcagt tgttttgttt taattttcga gaacattttc tcaaaagtaa
      841 tacaaaaaac tgaaacaaat cgtaaaattg acgagcatcg cgtcaacaag aaacaaacaa
      901 gggaccaatt tctttgtcaa aaagagaaaa tgtgctagtg acatcatctg acgagaccct
      961 tttcttcagt gtgtgagcat gactgtctgc gtcttatctg actctttttc gtatgtaaat
     1021 tctctcggcg tctcgatgct ttagcattca gaaagaacgt tacctcgaca aattcgtgta
     1081 gaagacgtga tttacgtaga acttcgctgt cgaacacaaa gtttaggcag gcttctatag
     1141 catgtcggcg ctcttggatg acggatggat ccgctgaaaa attagaagaa aaaataattg
     1201 aagaatagga ttaaaaatta tttcgaggga aaaagtgaca caaagtttag tatttaagga
     1261 aattaccaaa aacctacaag atccgatcaa ctttcccggt ggaaaaacag ggaaagttcc
     1321 tcgaagatac agctgtttat ggagtttcga gattgccgca tgaagttttg tcatttcttt
     1381 atatcgagtg ctcaatacaa aagttcgacg agaaacgtca tttgcgacga gatgggatgc
     1441 cactggatta cattcaattt cgacagtgta aactgtatgc gaaccagtaa gatgtttctc
     1501 ttcggaaatt gatgttactg tagagctgca tgaccagtca gtctgaaaat tagcttattg
     1561 gcaagttgga aaaaacttct agaagtatct ataggaataa gcttttatta accttaagtt
     1621 ggtaaagtat ccttcctata tcacttgtgc agtagctttc atctggatat aacgagctca
     1681 tctttcatac tttcctgaaa tgattgaaac ttaaaacttc agaagttgta attattaaca
     1741 aaaaatcaac attcagggcc aaaatagaat tctacacatt tagaactttt caaaagttgg
     1801 aaaaactggc agataggaaa ataaaatcgt tcgggtttgt ttacaattcc gtgtcatttc
     1861 aatcatgttg tctgcgtctc ctgattttgt gaaatgacca acaagatcga tgaggttgcg
     1921 aaagaaaaga agatcataaa atatttttgc aaaggttttt atattttctc acctttatag
     1981 aaaaatggga aacttgaatt cacaataaat atctttatta aaacgagact ctgattccga
     2041 atagtacgaa acgccgttcc aataaaaaac gaagtttcca agaagagatg agggcagggg
     2101 aaaggtgtgg atgaaggtat caaataaata ccttagctat ttttgaatca aaccataaaa
     2161 aaagagcaaa aagtctgggg tagaaatgaa tatggtatca caagaaattt agagaaatgt
     2221 tactttgtaa caaaatctca gaaaattgaa gacaggaaag aacagaagaa ctgtgtgaaa
     2281 aaccagaaaa aaaacattaa atatgagaaa ctgggccgat gcaagaggta tctatggaca
     2341 acgaaacaac agtaacaaat gataattaat actctattca acgtcttcgt agtcTTATTT
     2401 ATTTCCCCAG AAACTCTTTT TCCACCCGGA AAGCATTCCA GTAAGTCCTT GTTGTTCTTC
     2461 TTCTTCTTGA TTTGAAGTTT TTGACGAAGC AGCTGCTGCA GAAGATCCTT TCGCTGCCTT
     2521 CTTTGGAGTA GCATCACGAT CTTTTTGGAG TTTTTCAAGA CGGTCATCAA CATTGGGCAT
     2581 ctgtaaataa ttgtttaaaa ctaaatactt ttttgatgaa taagtttaga taaaattttg
     2641 atcagcaagt tcaaaaatat gataaatata aattacagca tagcatcaaa catgttttct
     2701 ctttgttttt aatggaaaac aacgattagt gttttttttt caagtgaata cgaattgtct
     2761 tactcttgca aaagtcgaaa aattggaatt tctaaactac aaaacgattt tttaatttat
     2821 ataccaagtt ttgcgtgatg aaaaaactta cGGTAAGATG GAAGTTTGCC AAATCGAAGA
     2881 AAATAGGTTT GTTCGGCATT GGAATAAAAG CTGGTGGTAA ACTGGCAACT GGAATTGTCT
     2941 TTTTATCTTT CAAGGAGTTA CGAACATCCC ATTGACGCCA TTCATTGACT GTCTCCAGAA
     3001 GTGGGCGTTT ATCAATAATC TTGGCAAGTT CCGAATCGGT TTTAACATCT CCAGCAGCGG
     3061 AAGCCAAACG AGCAGCTCGT ACAGTAACCT TCGCAGATTC CACTTCAGAT CGGAGCTCAT
     3121 TCAATGACGA TTGAGTTTCA TTGGTGATAA ATGAGCTCGA TTTTAATTTC TTAAGTTTTC
     3181 CTTCTGCATC TTGAACTCGA GAAACAGTTC TGTCAAAGAG AGCAGCGGCT TCACTGTACT
     3241 TATGAAGAGC AGAATAAGAA GAAGCCATAT AGAAACATCT GAAAGCTCTG TAGTACTCAA
     3301 CTTTGACTTC AAATGCTTGA ATAAGATTTT TGTCATGATC AGCTCCCGGG ATTTCTGCGA
     3361 CTTCTTTGTA AATTTCGATA ACAGAATCGT AGAGTCTCAA AAGATCTTGA GGTTTGCTCT
     3421 TCTTTTCACT TTTTGTGTTA TCAATAATAG CCAAGTAACG CGAAGCAGTT CCGTTCATTT
     3481 TCAGGAATTC CAAATAAGCC TTGATTGATT GAAGAACAGT CGTGTCAGCA TTTTCAGAAC
     3541 TTTTACGGCG AATAATATCC GAAATTCGAT CTATAGCATC ACGAGTATCA GCGGTGGCTT
     3601 TTTCAAAGAG AGCCATTTTC TCTTTTGGAG TTTGGCATTG TGCCAATTCG ACTTCTGTTT
     3661 GCTTCCATTC TTGAACAACT TGCTTTGCTT TTTCATCGTC AACAGTACTC TTAGCTCCTC
     3721 CCCATTCGAT GGTGACAACT TCAGCGGATG TAGCAGAAGC TCGCATTTCC GAGATTAGTT
     3781 Tctgaaaaca tatttatttg ttaatttttt ttcttaatac ttacATCAAC AGAACTGTCT
     3841 CCTCCTTCTC CCATTTGCAT TCTCAATTCC ATAAGCTCTG TCATTGTTCC AACAGCACCA
     3901 GGAGACTCGG CGATATTGAA TTCACAAAGT CGAAGTTGAG GTTGAATTTC ACGACAACGA
     3961 CCCTTGAAAA TCGAAGAAAG TGTAGTGTTG TTGGTGGCTT CAGCAAGCTT CTCATAAACA
     4021 GTTTTAGCGA GCTTGAGGGA TTCAGATGCT TTCTGCCAGT TTCGAGATTC AAAAGAGCAC
     4081 ATTCCACGCA TCCATGCTGC ATAAGCTTGC GCTTCGAGTT TTGTTGGAGC GTCAAActga
     4141 aaataaagtg tatctggtca tcaaacaaag attttctctc tttctttctg ctcaaactta
     4201 cTCTTTCGCT TTCCTGGACG ATTTTTTCGA GATTTGTAGC GTGAAGAACA GCCTTACGGA
     4261 GTGAATTTAT CATTGAAAAC TTCTTTCTTG ACTTTTCTGG GTTGTCTTCA AGCGTGATCT
     4321 TGTCAATCAT TGCTTCAGCG TATCTCCGCT CTGATTCGAA AATTCCAAAA TTAAGAAATT
     4381 GCACATTTTG CACCGACTCC ACAGAAAGCC ACTTTTTGAC AAACTTCGCT TTTCTCTTCT
     4441 TCTGGCAATT GTGCGAATTC GTGAATTTCA ATGCTTTTCT CATGCGCTCC AACTTTGCTG
     4501 CACAGTACTT Tctgaataaa atcggttatt taatgtttta atcctagcat tgttacCTAT
     4561 AGCGAGCATA ATCACCATGT CGTAAACCGT GTTGCTGTTG AGCGTCTTTT ACGACctgaa
     4621 aatatattgt ttttattcaa aataagaaga aaaactatta cCTGAAGAAT ATGAACAGTG
     4681 GGGAATGGTG GAAGCTCTTC AGTCTCTGAT TTCATCTCCA CGTCGTTTGT CATttccctg
     4741 aaaatattga atttaaatat ttaaatgtta attttacata aagaactaag tttctttgat
     4801 gaaaaaataa aaaagaacgg aaatattgga cacatcggca gaaagcaaaa actgcgtcag
     4861 cacagaagcg cgccagtgac cgcgctgctt gcgcactctc cgatgaaatt tgcggttttt
     4921 caaataaata taactgcaag aaaatccaaa attaccgtac tttattttac gttgtattta
     4981 atgttttttt gttttccaat aatgataaga acagagatga gcacagaaat ctatactttt
     5041 cgtttgaaaa ttacgttaga taatctatta taaataattc aattgtaatt taaatggcaa
     5101 atcaattggt aattgatcag gttctcattc atacaaaatt ttgctcaata tttcagaaaa
     5161 catcgattta gtttgatcat ttggactaat ctgattctga aagttataat ttattttata
     5221 cacctcctcg tgctctgtaa tatgtcatgt ttgagtattg aattcatttt ctaacaactt
     5281 ttttctaaaa acatgcagga aatgcattgt caaacgccac cgatttcagt atataagtta
     5341 gtttttcata atgaaaagtt aaaacctcat tttaatttca gaacactcat gcatactctc
     5401 catattctcg acgtaccact ttatctgatt gtgataatcg cccttttcaa aattaaatca
     5461 aatatttttc aaacgtataa atactatttg atatggcata caataatgtg atctaacttc
     5521 tgaaaaggtt ttcaaaattt tgtaacattt tttagaaatg tgctcaccga gtttcatagc
     5581 tgctttctca tgcttccagt tgttcatcta ccgtacccat tactacgtgc aactggaatt
     5641 ctcgcagaat ttggatttag tggcttattc ttgttttatg tcctatctgc atttattata
     5701 cgtgagttga atattagttt aaaattaatc gatcgaaaaa cacttttcta tgtttcagaa
     5761 acttcatttt caattatcga gatgttctat ttccgataca aagctagcgt ttttgactat
     5821 caaagccgaa acttcacaaa attcgtaaag ctattcatat attcatttcg tgttttaacg
     5881 attctctttc ctggaatcac attcggaaca tttttctata gtattgaacg acaagaagaa
     5941 tacaaaaaag agcttgcaat ggtagcgtat caaaaatatt tctagatgtg aaagatttta
     6001 ataaaaagta atagaaacaa cgctcgaatt atcaaattaa ataaaagaat aagacataaa
     6061 gattagtgaa ttctaaatgc ttttacaaaa tttagcaatc gatccttaaa cggcgcgctt
     6121 ttttgctgat tctttttgca tttagcattc gaaatattca tctatgtccc atttataaag
     6181 ctttaaataa aagttgaacc agttcgtacg cttgtaaact ccgccagcct ctgcggaaca
     6241 caaaaagtcc actgatcgat tgataaattt tgagagtaat ttcaaacagt caatgatcta
     6301 tgttaagatt gatccatcaa ttcctgaagt aacatgttat tcatcagtac ttgctgctcc
     6361 gttttccgat tccgtaatga tatctacaat gattacctgg ttggcatgta taatttgtgc
     6421 attctcagta attccaagca ccactattta tttgaattct catttgcgga gtacgaaaaa
     6481 tatgtctcca ggagttgtaa ggatgcagaa aatgctttta tcaagtttga tcgttcaggt
     6541 atataacatg ataattttat attaagaaaa tttaattttc agacattcgt tcacggattc
     6601 atgttgggaa tacctaatat tctgttcgtt tacacaatat tttttggggc tcatcttgaa
     6661 ggtataattt tatcttaaaa ccggcatttc atctattatt attttcagtt gcggcatacg
     6721 cagcattcat gtgtctg    
//

plain sequence
 
