Van Oudenaarden Lab:F31A3.2

Progress:

Probes designed: (03-04-2010 - Christoph Engert)

Probes coupled:

Probes purified:

Probes tested:

Dyes available:

>F31A3.2 (spliced + UTR - 720) ATGCCAAAAG TACATCAAGC AACATTTCCA AAAGCCAGTG TCCATTCAGT TCCATACAAC CAAACTCGAA AATCAGTTTC CGAACGGAAA AGAAGAGATG AAATCAATGA ATTACTGGAA AATCTCAAAA CAATTGTGCA AAATCCTTCT GACAGCAATG AGAAGATTTC ACACGAAACT ATTCTATTCC GTGTGTTTGA ACGGGTTTCT GGAGTTGATT TGGAAACAAA ATTCAACTCA ACCGTTGATA TCCCTAAAGC TGAGGGAAAT ACAAAAGAGG AGAAGCAGAA AGTGAAGACA AAAAGAGAAC AAATCAGAAG AAGTAAGCAA GATATCTGTT ACACCGAACT TGGAAATTTC GTTCACAAAA ACCGACTTGG CAATACTGAG CAAAGGAACA AATTGGAACG CGTAACAGTT TTGCAAATAA TTCTCGAATA CATCTGTCAA ATGCCAGAAC AATCAGAAGC AATAGAAAAG GAAAACTCAC CGATGTACCC AGTGTATCTA GAACCAACTA AATGTATTTC TCCAGAACAA TCCGTCGCTT CTCCCAGCCC GTTCCTTTTT TCAAACACGT TGGCATTCTT CAATCAGGTT GCACAGCTCC ATTTTATCGC GAAACTTCAA GCTATGCTCC CACCGACGCC AGTTCAAACA CCAGAAGCCC ACATGAAAGA GCAAACTAAT GAAGAGGAAG ATATCGATAT TATTGGCTGA

-- Name of probe set: hlh-28 Probes designed on Wed, 03 Mar 10 23:44:28 -0700 30 probes designed for target of length 720

Probe (5'->3'), Probe name, Probe number, Probe position, Percent GC

gcttgatgtacttttggcat, hlh-28_1, 1, 1, 40 gacactggcttttggaaatg, hlh-28_2, 2, 23, 45 gtttggttgtatggaactga, hlh-28_3, 3, 46, 40 ccgttcggaaactgattttc, hlh-28_4, 4, 68, 45 cattgatttcatctcttctt, hlh-28_5, 5, 90, 30 gttttgagattttccagtaa, hlh-28_6, 6, 112, 30 ctgtcagaaggattttgcac, hlh-28_7, 7, 136, 45 gtttcgtgtgaaatcttctc, hlh-28_8, 8, 160, 40 cgttcaaacacacggaatag, hlh-28_9, 9, 184, 45 gtttccaaatcaactccaga, hlh-28_10, 10, 208, 40 ggatatcaacggttgagttg, hlh-28_11, 11, 234, 45 cttttgtatttccctcagct, hlh-28_12, 12, 258, 40 gtcttcactttctgcttctc, hlh-28_13, 13, 280, 45 cttcttctgatttgttctct, hlh-28_14, 14, 304, 35 cggtgtaacagatatcttgc, hlh-28_15, 15, 327, 45 gtcggtttttgtgaacgaaa, hlh-28_16, 16, 357, 40 ttcctttgctcagtattgcc, hlh-28_17, 17, 379, 45 caaaactgttacgcgttcca, hlh-28_18, 18, 404, 45 gacagatgtattcgagaatt, hlh-28_19, 19, 429, 35 gcttctgattgttctggcat, hlh-28_20, 20, 451, 45 cggtgagttttccttttcta, hlh-28_21, 21, 473, 40 gttctagatacactgggtac, hlh-28_22, 22, 495, 45 gacggattgttctggagaaa, hlh-28_23, 23, 527, 45 ttgaaaaaaggaacgggctg, hlh-28_24, 24, 555, 45 ctgattgaagaatgccaacg, hlh-28_25, 25, 578, 45 cgataaaatggagctgtgca, hlh-28_26, 26, 600, 45 gggagcatagcttgaagttt, hlh-28_27, 27, 622, 45 tctggtgtttgaactggcgt, hlh-28_28, 28, 646, 50 agtttgctctttcatgtggg, hlh-28_29, 29, 668, 45 tatcgatatcttcctcttca, hlh-28_30, 30, 690, 35 -- Input sequence with probe locations:

atgccaaaagtacatcaagcaacatttccaaaagccagtgtccattcagttccatacaaccaaactcgaa tacggttttcatgtagttcg gtaaaggttttcggtcacag   agtcaaggtatgttggtttg  ctt Probe # 1, 40% GC    Probe # 2, 45% GC      Probe # 3, 40% GC     Pro

aatcagtttccgaacggaaaagaagagatgaaatcaatgaattactggaaaatctcaaaacaattgtgca ttagtcaaaggcttgcc ttcttctctactttagttac  aatgaccttttagagttttg    cacgt be # 4, 45% GC    Probe # 5, 30% GC     Probe # 6, 30% GC       Probe

aaatccttctgacagcaatgagaagatttcacacgaaactattctattccgtgtgtttgaacgggtttct tttaggaagactgtc   ctcttctaaagtgtgctttg    gataaggcacacaaacttgc    aga # 7, 45% GC      Probe # 8, 40% GC       Probe # 9, 45% GC       Pro

ggagttgatttggaaacaaaattcaactcaaccgttgatatccctaaagctgagggaaatacaaaagagg cctcaactaaacctttg     gttgagttggcaactatagg    tcgactccctttatgttttc  c be # 10, 40% GC        Probe # 11, 45% GC      Probe # 12, 40% GC    P

agaagcagaaagtgaagacaaaaagagaacaaatcagaagaagtaagcaagatatctgttacaccgaact tcttcgtctttcacttctg   tctcttgtttagtcttcttc   cgttctatagacaatgtggc robe # 13, 45% GC     Probe # 14, 35% GC     Probe # 15, 45% GC

tggaaatttcgttcacaaaaaccgacttggcaatactgagcaaaggaacaaattggaacgcgtaacagtt aaagcaagtgtttttggctg ccgttatgactcgtttcctt     accttgcgcattgtcaa Probe # 16, 40% GC   Probe # 17, 45% GC       Probe # 18, 45% G

ttgcaaataattctcgaatacatctgtcaaatgccagaacaatcagaagcaatagaaaaggaaaactcac aac    ttaagagcttatgtagacag  tacggtcttgttagtcttcg  atcttttccttttgagtg C      Probe # 19, 35% GC    Probe # 20, 45% GC    Probe # 21, 40% GC

cgatgtacccagtgtatctagaaccaactaaatgtatttctccagaacaatccgtcgcttctcccagccc gc catgggtcacatagatcttg            aaagaggtcttgttaggcag        gtcggg Probe # 22, 45% GC             Probe # 23, 45% GC          Probe

gttccttttttcaaacacgttggcattcttcaatcaggttgcacagctccattttatcgcgaaacttcaa caaggaaaaaagtt  gcaaccgtaagaagttagtc  acgtgtcgaggtaaaatagc  tttgaagtt
 * 24, 45% GC    Probe # 25, 45% GC    Probe # 26, 45% GC    Probe # 2

gctatgctcccaccgacgccagttcaaacaccagaagcccacatgaaagagcaaactaatgaagaggaag cgatacgaggg   tgcggtcaagtttgtggtct  gggtgtactttctcgtttga  acttctccttc 7, 45% GC     Probe # 28, 50% GC    Probe # 29, 45% GC    Probe # 30,

atatcgatattattggctga tatagctat 35% GC