File: mrpl-39_Wildtype.ape

Comments
>Y46H3A.7a.1 unspliced + UTR + 2000 upstream + 2000 downstream; +ive strand; Sequence: 5517 bp
>Deletion size = 670 bp
>mrpl-39 sgRNA #1, Chr V, ATTATTTTCAGACGCTGTCC; cut=1822064; strand=+1; GC=40; 3'GG=no; folding=-1.3
>mrpl-39 sgRNA #2, Chr V, CCGCGAAGAGAAGCAATTCG; cut=1822714; strand=+1; GC=55; 3'GG=no; folding=-3.7


Features
mrpl-39 SV F	primer_bind	forward	1652..1672
CAAAACCTCACCTTTGCCTCC

mrpl-39 Upstream Homolgy Arm	misc_feature	forward	2019..2468
TACCTGTCAGAAGCCTGCTGGCAATCCGGAGCGCATCAACTGCTGTGGCATCGGCCGAAAGTATGAGAAAAGTTATTCAGGCTTTTTTTCTAGCTTCTATAGAAATAATTTTTAATTATTAAATGTATAAAATTGTTGAGAAGCATCCTACACATCGAAAATGTATCTGAACCGCCAGTTTTGCGATTTCTGTTTCGTAAAACATGTAATTTTGTGAGGAAAAGCTGTTTCTTGACAGAAATCGTTGATTTTACCCACTTTCTGATCGTTTGATGCTTTTAAATGATATTTTTCGTTTGAATTTGCGAAAAAATTGATAAAAAGCTGAAAAAGAGAAAATTTAAACGGTGTTCAATAATTATGGAGGCTGTGAGTTGCATTAAATACCCCAAATTTCTTGAAAATAATATTTATAACAAAGAAAAAAACGATAAAAAATGCTTATAAAAT

Left Deletion Flank	misc_structure	forward	2439..2468
GAAAAAAACGATAAAAAATGCTTATAAAAT

mrpl-39 sgRNA #1	protein_bind	forward	2469..2488
ATTATTTTCAGACGCTGTCC

mrpl-39 WT F	primer_bind	forward	2883..2904
CTTGTTCGCTAGTTACTGCTGC

mrpl-39 sgRNA #2	protein_bind	forward	3119..3138
CCGCGAAGAGAAGCAATTCG

Right Deletion Flank	misc_structure	forward	3139..3168
AGGTGATCGCAGTGCCAACGAGTGTAGCAG

mrpl-39 Downstream Homolgy Arm	misc_feature	forward	3139..3488
AGGTGATCGCAGTGCCAACGAGTGTAGCAGAAGCATCAGGAATCCACGGCGATCATCTAGTACGAATCGGTCGCCAAGTGTTCTCCACAGATGGCCCATGCATCAATTCGACTCGTCAAATCGGCCGCTTCACGATTTTCCGATCAAAATCATCTGGCAAGAGTGTGATCGTCGGCGGAGTGTCGATTCCCATGAAACAGCCGACTTCATCATACTCCTGGAGCCTCGTCGCCAAGAATGCAGTGCAGAAATTTAGTAAAAATGCATGAGAATTGAAATTCAATAGTTTTTTATAGCTAGTTTCTGATTGTTGTTTTTCTTTTTTGTTACTTTTTTCTGTTCATTAAAAG

mrpl-39 SV R	primer_bind	reverse	3613..3634
CCACCTCCCCGGTAATCAAATT


formatted sequence

        1 gtcactaaat ttcgagtaaa attacacgaa aaacatgaaa aatcagtcaa aaatgagaaa
       61 aattgatgaa taaaaattaa aatgatgcaa gcgcgctcca acgaacgagt tcaattggcg
      121 gtaattcaaa tgggaatttg atgcaatttt caaaaaatca tataaaatct agaaaatttt
      181 tttgaatttt ttaaatcatg atatttggtc tttgtgaccc cataggcatg ttttaaagca
      241 atttccccac agagcagagt ccagaaaaat tttagcaaaa aactgccgca actggagaaa
      301 attctcgtaa atcttttttt ttaactagaa attcaaagtc aggggtcctc ctgcaaactt
      361 acgcttgtca gaatcatcgt caaccatcac aacctgctcg atcaactctg gcggggatct
      421 gagcagcacc gaatgcacag ttcggagcaa cggagtccat ccctcattgt ggaacacaac
      481 aaccactgaa acagtcggca gcttttctgg ataatcccaa tgcttgcact cttccggcct
      541 gatatccgga atagttcgat tcatcgagat catatcggag acgtaggtat tgaagccgaa
      601 ctccttctcc gctgctcttc ctgccgccat tccttcttca tcggttactg gcacaggttt
      661 tccgtgctct ccgggctgat ttgatgggat ttccggctct tttggctcgt agtttcctag
      721 ttctgagcca cggaagattg tattaggatc aggaccaccg gggagctcct tatttgtgag
      781 atcgtctaaa tcatcaaatt gttgagcggc actgtccgat ttgatagatg acatgctctg
      841 aaattcattt tgtttttgag ttttgtttct attccctgaa atgtggacta cgctcagtgg
      901 gaaaattgct ttaaaacacg cctatggggt cacaataacc gaatatcata gtaaaaaaat
      961 tcaaaaaaat tttctagatt ttatatgatt ttttgaaaat tggaaaaatc tcagttttcc
     1021 acttaattcc tatttgaatt tccgccatta tttgtattaa tttattttat tttttctcat
     1081 tatttcactg attttcttta ttatttgtgt atttttatcg gaaaaagaga cagaaatgca
     1141 tattttcatt aaaaatcact gaaaatgggt aaaactgaac ctgaaattat catatttcac
     1201 agttttacgc atttacagtg acttttaatg aaaaatttgc atgtatcttg catttttctc
     1261 actttttcca ataaaaatac acaaataatg aagaaaatca gtgaaataat gataaaaaat
     1321 gaaattaatt aattaaaata atgcaagcac gctccataga acgaatccaa ttggcggaaa
     1381 ttcaaatagg aattattagg gggaaaattg agatttttcc aattttcaaa aaatcatata
     1441 aaatttagag actttttttg aatttttttt ggtcattgtg accccagagg catgttttac
     1501 agcaatttcc ccattaggcg cactccaaaa aaacctacat ttcccttgct attgtagaca
     1561 aatccaaata aaactaaaac tcccaggcaa atatacgtag ccactcggca tcctctgaaa
     1621 caaaatttat taattttaaa gtagagaaaa acaaaacctc acctttgcct ccataatctc
     1681 tgtagttgca gctttttccg ggcgattatc atgtcagatc cggttggttt aatcaagttt
     1741 tcgttctgaa acgcaaaaaa tacgttaaat tgacttaaaa attgaacatt tcggtcaaaa
     1801 aagcacaaat tcggtagaaa aatcgtagaa aaatcgtcaa tgtgttggca aatacccgac
     1861 tccgcccaca tgcaaggcgc ggcacgcgtt ttcgcaatct gcgcacacac tttggtttcc
     1921 ggtgatttta tttttatttt tctgatttct ttttttaatg gttttttgct ttaaatcact
     1981 taaaaaaaca tatttttcag gtcaataaaa cATGAAACTA CCTGTCAGAA GCCTGCTGGC
     2041 AATCCGGAGC GCATCAACTG CTGTGGCATC GGCCGAAAgt atgagaaaag ttattcaggc
     2101 tttttttcta gcttctatag aaataatttt taattattaa atgtataaaa ttgttgagaa
     2161 gcatcctaca catcgaaaat gtatctgaac cgccagtttt gcgatttctg tttcgtaaaa
     2221 catgtaattt tgtgaggaaa agctgtttct tgacagaaat cgttgatttt acccactttc
     2281 tgatcgtttg atgcttttaa atgatatttt tcgtttgaat ttgcgaaaaa attgataaaa
     2341 agctgaaaaa gagaaaattt aaacggtgtt caataattat ggaggctgtg agttgcatta
     2401 aataccccaa atttcttgaa aataatattt ataacaaaga aaaaaacgat aaaaaatgct
     2461 tataaaatat tattttcagA CGCTGTCCCG GCTTCCGTTC CAGCAGCGAC TCTTTCCTCC
     2521 GAGTTCTTCG ATCACATTCG CCATCAAGTG TACGGGGACT TGAAAAAAGT GGACAAAGTC
     2581 GTGGTTTCAG TGAGAACTGA GGATAAGGCT CAGCCAGTTC TTGTGAATCG GAATGTGTCC
     2641 ACATCATTTC ACTGTTTTAA TCgtaagaaa gcagatttta tgaataaata attaattttc
     2701 cccaatttca gATATCTCCA AGCACTTCGC CGACGACGCC GTACTCGTGG AAGTTCATCC
     2761 ATCCGTTGGC GGCGCCTACT TCAGCAGCGT CAATCAACCA CTTCAAGATC AAGCCGAGAT
     2821 TCGAAAAATT GGATTCGATT CTGCTGAGGA CGTGAATTTA GTGAATGATG CCTACTGGAG
     2881 ATCTTGTTCG CTAGTTACTG CTGCATTCCT GAAAGAAGCT CTGGACGTGG ACGTGGATTT
     2941 CAGATTCCCA CGTGGAAATA TTGAAAATGG ATATTTTTCG GTGGATGTGA AGGGATTGAA
     3001 TGGGAACGTT TTCACCTTGg tgagcagttt ttttttttga aataaaatta attaaaattt
     3061 ttaaaattga ttttcagGAC GAACTTAACA CGATAAATCG ATTCGGTAAA TCGTACATCC
     3121 GCGAAGAGAA GCAATTCGAG GTGATCGCAG TGCCAACGAG TGTAGCAGAA GCATCAGGAA
     3181 TCCACGGCGA TCATCTAGTA CGAATCGGTC GCCAAGTGTT CTCCACAGAT GGCCCATGCA
     3241 TCAATTCGAC TCGTCAAATC GGCCGCTTCA CGATTTTCCG ATCAAAATCA TCTGGCAAGA
     3301 GTGTGATCGT CGGCGGAGTG TCGATTCCCA TGAAACAGCC GACTTCATCA TACTCCTGGA
     3361 GCCTCGTCGC CAAGAATGCA GTGCAGAAAT TTAGTAAAAA TGCATGAgaa ttgaaattca
     3421 atagtttttt atagctagtt tctgattgtt gtttttcttt tttgttactt ttttctgttc
     3481 attaaaagaa caaaaattat aaagctctaa ataatttatt aagtatgtac aaaaacaaaa
     3541 aaataatcta acacagtgcc ctttcagaga ctaattatcc attcttcaag aaattattca
     3601 aaaatccctg cgccacctcc ccggtaatca aattgttcag ctgtcccaac acagctgcag
     3661 gcgactgatc catcattcca gacacttctt cgcatctctt catggctctc tgcaattgtg
     3721 ttccgatttc caagcttgcc atcacatcac acgtggcaac ggcttctcgc agcgaatcac
     3781 actgttgccg ttctgcacca cgtcggcacg tctcctggga tgctttcagc aaatcgattt
     3841 ctccgtgaag aattgctcgt cgaagttctt caccccacgc gtcgaacgtc ttctcgtcgg
     3901 cttgatcctg gcattttcca tacgcgattt gcatgaattc cgatataaat ggaaggcagc
     3961 ctttgccacg tggcaggcca aagttactat ccgtatttgg cataaaatct cggattccga
     4021 tctgcgggag tggctccgct ttgcctccct cagttggggt cccggtgccg gtgccaactt
     4081 gaaggaatcg acgggcgatt tgcatgaatg ggctgccgtc gaaagcgttt gtctggaaat
     4141 attttatttt tatttttaaa tttgccgcta ggcgatttcg aatttattat gcggacccaa
     4201 tcgcgctcca cggctaatcg aaagcgctcc gcccctaaac gttgggtctc gttaggtatt
     4261 tggtggaaaa actgtaaatt caaacgcttt cggcaatttt taggattttt ttgcaaaacc
     4321 acaaaatttc gactatcgtt gttttttcgg caatttgccg gtttaccgga aatttcaatt
     4381 ccggcaatgt gccggtttgc caattttccg gaacatttca attccggcaa tttgccgatt
     4441 tgccgtaaca tttcaattcc ggcaatttat cgattttccg gaaatttcaa ttccgccaaa
     4501 ttgccgattt gccggtaatt tcaattccgg caatttgctg atttgccaat ttgccggaaa
     4561 tatcaattcc gccaatttgc cgatttgccg gaactatcga ttccgccaat ttgccgattt
     4621 gccggtaatt tcaatttttg caatttgccg gtttgccgat ttgccggaac atttaaattc
     4681 cgccattttg ccaatttgcc gttatgccta tttgccggaa aaaagaaatg ctcgtaattt
     4741 ggcgaaacga attgaaaacg gttgaattta cgattttacc gccaaatacc taatgagacc
     4801 caacgatggt aggcggagcg ttttcaattg gagcgcgttt tgggcctcac acgtggagtc
     4861 agaatgtctc atttcgcttt gatcttcaaa aaatgtggga gttgagacgc agacatctca
     4921 tctgattttg catggttaag agcgtgctga cgtcacaatt ttctggagaa atattaccgc
     4981 atttttcgta gatcaaaccg caatgagaca gcccgacacc atgtggggcc ttataataac
     5041 aaaataaatc ataccggcgc tggtggtctt gctagttcgg gagcactcac agctgcagca
     5101 gaagaagacg cggaagccgg tgcggcaatt tccacgggag ccggaatatt agctggagca
     5161 gcttctacag ccacctcggc tatcggctcg gcatatcgaa tctcccgaat cttctctccc
     5221 atcgccacgt ttttcttgaa atcccgcaca cccaacacat cacgaccgcc catgtcgaaa
     5281 gtattatcat tcgactcttg ttgcttcgga atcccaaaca ttggtggaag tgttgctggt
     5341 ggtggtggag tcgatggggt tccgaatgtt aatggtggga gggtcggaaa tgtggatggt
     5401 ggtggtgttg gtggcgtaga agctccggaa gcttccagct tatccagggc ttgtaggaaa
     5461 gcatttcggc cttggaatgc gagattttga attgctgaaa attacggaaa tagttta
//

plain sequence
gtcactaaatttcgagtaaaattacacgaaaaacatgaaaaatcagtcaaaaatgagaaaaattgatgaataaaaattaaaatgatgcaagcgcgctccaacgaacgagttcaattggcggtaattcaaatgggaatttgatgcaattttcaaaaaatcatataaaatctagaaaatttttttgaattttttaaatcatgatatttggtctttgtgaccccataggcatgttttaaagcaatttccccacagagcagagtccagaaaaattttagcaaaaaactgccgcaactggagaaaattctcgtaaatctttttttttaactagaaattcaaagtcaggggtcctcctgcaaacttacgcttgtcagaatcatcgtcaaccatcacaacctgctcgatcaactctggcggggatctgagcagcaccgaatgcacagttcggagcaacggagtccatccctcattgtggaacacaacaaccactgaaacagtcggcagcttttctggataatcccaatgcttgcactcttccggcctgatatccggaatagttcgattcatcgagatcatatcggagacgtaggtattgaagccgaactccttctccgctgctcttcctgccgccattccttcttcatcggttactggcacaggttttccgtgctctccgggctgatttgatgggatttccggctcttttggctcgtagtttcctagttctgagccacggaagattgtattaggatcaggaccaccggggagctccttatttgtgagatcgtctaaatcatcaaattgttgagcggcactgtccgatttgatagatgacatgctctgaaattcattttgtttttgagttttgtttctattccctgaaatgtggactacgctcagtgggaaaattgctttaaaacacgcctatggggtcacaataaccgaatatcatagtaaaaaaattcaaaaaaattttctagattttatatgattttttgaaaattggaaaaatctcagttttccacttaattcctatttgaatttccgccattatttgtattaatttattttattttttctcattatttcactgattttctttattatttgtgtatttttatcggaaaaagagacagaaatgcatattttcattaaaaatcactgaaaatgggtaaaactgaacctgaaattatcatatttcacagttttacgcatttacagtgacttttaatgaaaaatttgcatgtatcttgcatttttctcactttttccaataaaaatacacaaataatgaagaaaatcagtgaaataatgataaaaaatgaaattaattaattaaaataatgcaagcacgctccatagaacgaatccaattggcggaaattcaaataggaattattagggggaaaattgagatttttccaattttcaaaaaatcatataaaatttagagactttttttgaattttttttggtcattgtgaccccagaggcatgttttacagcaatttccccattaggcgcactccaaaaaaacctacatttcccttgctattgtagacaaatccaaataaaactaaaactcccaggcaaatatacgtagccactcggcatcctctgaaacaaaatttattaattttaaagtagagaaaaacaaaacctcacctttgcctccataatctctgtagttgcagctttttccgggcgattatcatgtcagatccggttggtttaatcaagttttcgttctgaaacgcaaaaaatacgttaaattgacttaaaaattgaacatttcggtcaaaaaagcacaaattcggtagaaaaatcgtagaaaaatcgtcaatgtgttggcaaatacccgactccgcccacatgcaaggcgcggcacgcgttttcgcaatctgcgcacacactttggtttccggtgattttatttttatttttctgatttctttttttaatggttttttgctttaaatcacttaaaaaaacatatttttcaggtcaataaaacATGAAACTACCTGTCAGAAGCCTGCTGGCAATCCGGAGCGCATCAACTGCTGTGGCATCGGCCGAAAgtatgagaaaagttattcaggctttttttctagcttctatagaaataatttttaattattaaatgtataaaattgttgagaagcatcctacacatcgaaaatgtatctgaaccgccagttttgcgatttctgtttcgtaaaacatgtaattttgtgaggaaaagctgtttcttgacagaaatcgttgattttacccactttctgatcgtttgatgcttttaaatgatatttttcgtttgaatttgcgaaaaaattgataaaaagctgaaaaagagaaaatttaaacggtgttcaataattatggaggctgtgagttgcattaaataccccaaatttcttgaaaataatatttataacaaagaaaaaaacgataaaaaatgcttataaaatattattttcagACGCTGTCCCGGCTTCCGTTCCAGCAGCGACTCTTTCCTCCGAGTTCTTCGATCACATTCGCCATCAAGTGTACGGGGACTTGAAAAAAGTGGACAAAGTCGTGGTTTCAGTGAGAACTGAGGATAAGGCTCAGCCAGTTCTTGTGAATCGGAATGTGTCCACATCATTTCACTGTTTTAATCgtaagaaagcagattttatgaataaataattaattttccccaatttcagATATCTCCAAGCACTTCGCCGACGACGCCGTACTCGTGGAAGTTCATCCATCCGTTGGCGGCGCCTACTTCAGCAGCGTCAATCAACCACTTCAAGATCAAGCCGAGATTCGAAAAATTGGATTCGATTCTGCTGAGGACGTGAATTTAGTGAATGATGCCTACTGGAGATCTTGTTCGCTAGTTACTGCTGCATTCCTGAAAGAAGCTCTGGACGTGGACGTGGATTTCAGATTCCCACGTGGAAATATTGAAAATGGATATTTTTCGGTGGATGTGAAGGGATTGAATGGGAACGTTTTCACCTTGgtgagcagtttttttttttgaaataaaattaattaaaatttttaaaattgattttcagGACGAACTTAACACGATAAATCGATTCGGTAAATCGTACATCCGCGAAGAGAAGCAATTCGAGGTGATCGCAGTGCCAACGAGTGTAGCAGAAGCATCAGGAATCCACGGCGATCATCTAGTACGAATCGGTCGCCAAGTGTTCTCCACAGATGGCCCATGCATCAATTCGACTCGTCAAATCGGCCGCTTCACGATTTTCCGATCAAAATCATCTGGCAAGAGTGTGATCGTCGGCGGAGTGTCGATTCCCATGAAACAGCCGACTTCATCATACTCCTGGAGCCTCGTCGCCAAGAATGCAGTGCAGAAATTTAGTAAAAATGCATGAgaattgaaattcaatagttttttatagctagtttctgattgttgtttttcttttttgttacttttttctgttcattaaaagaacaaaaattataaagctctaaataatttattaagtatgtacaaaaacaaaaaaataatctaacacagtgccctttcagagactaattatccattcttcaagaaattattcaaaaatccctgcgccacctccccggtaatcaaattgttcagctgtcccaacacagctgcaggcgactgatccatcattccagacacttcttcgcatctcttcatggctctctgcaattgtgttccgatttccaagcttgccatcacatcacacgtggcaacggcttctcgcagcgaatcacactgttgccgttctgcaccacgtcggcacgtctcctgggatgctttcagcaaatcgatttctccgtgaagaattgctcgtcgaagttcttcaccccacgcgtcgaacgtcttctcgtcggcttgatcctggcattttccatacgcgatttgcatgaattccgatataaatggaaggcagcctttgccacgtggcaggccaaagttactatccgtatttggcataaaatctcggattccgatctgcgggagtggctccgctttgcctccctcagttggggtcccggtgccggtgccaacttgaaggaatcgacgggcgatttgcatgaatgggctgccgtcgaaagcgtttgtctggaaatattttatttttatttttaaatttgccgctaggcgatttcgaatttattatgcggacccaatcgcgctccacggctaatcgaaagcgctccgcccctaaacgttgggtctcgttaggtatttggtggaaaaactgtaaattcaaacgctttcggcaatttttaggatttttttgcaaaaccacaaaatttcgactatcgttgttttttcggcaatttgccggtttaccggaaatttcaattccggcaatgtgccggtttgccaattttccggaacatttcaattccggcaatttgccgatttgccgtaacatttcaattccggcaatttatcgattttccggaaatttcaattccgccaaattgccgatttgccggtaatttcaattccggcaatttgctgatttgccaatttgccggaaatatcaattccgccaatttgccgatttgccggaactatcgattccgccaatttgccgatttgccggtaatttcaatttttgcaatttgccggtttgccgatttgccggaacatttaaattccgccattttgccaatttgccgttatgcctatttgccggaaaaaagaaatgctcgtaatttggcgaaacgaattgaaaacggttgaatttacgattttaccgccaaatacctaatgagacccaacgatggtaggcggagcgttttcaattggagcgcgttttgggcctcacacgtggagtcagaatgtctcatttcgctttgatcttcaaaaaatgtgggagttgagacgcagacatctcatctgattttgcatggttaagagcgtgctgacgtcacaattttctggagaaatattaccgcatttttcgtagatcaaaccgcaatgagacagcccgacaccatgtggggccttataataacaaaataaatcataccggcgctggtggtcttgctagttcgggagcactcacagctgcagcagaagaagacgcggaagccggtgcggcaatttccacgggagccggaatattagctggagcagcttctacagccacctcggctatcggctcggcatatcgaatctcccgaatcttctctcccatcgccacgtttttcttgaaatcccgcacacccaacacatcacgaccgcccatgtcgaaagtattatcattcgactcttgttgcttcggaatcccaaacattggtggaagtgttgctggtggtggtggagtcgatggggttccgaatgttaatggtgggagggtcggaaatgtggatggtggtggtgttggtggcgtagaagctccggaagcttccagcttatccagggcttgtaggaaagcatttcggccttggaatgcgagattttgaattgctgaaaattacggaaatagttta
