Van Oudenaarden Lab:W02C12.3

Progress:

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

Probes coupled:

Probes purified:

Probes tested:

Dyes available:

>W02C12.3a (spliced + UTR - 1558) cagcaattca tacacaattg atcgtccccg tccatataac cgctgaaaaa aaggaaaaaa aATGGCCGAT GACGACGACC GCGTTGACAT TTCCAACGAG ACGCTTGCCT CTTTGGTGGG TCGACCGATG AGCTCGTCGG GCAATCGGAT TCGAGCCACC CCATCCAGAC GGCGGCTGGT TTCTGCGCCG ACGAACCCGA GGTGGTCACC ATCCGCAGAC GATCGGCGTC TTTTTTCATA TGTCTCGTCG ATGCGGTCGG ATAGTAACAG TAGCAGCAAG TCACCATCTC CACCGTCGGC CAAAATGTCT AAAAGGCCGA ATGGCCCGTA CTCTGTTAGA AAATATCAGC CCCGCGGATC CCCACCCAGT GACGGCAGCG ACAAAATTCA CAGATTCGGA GAGAGCCCAA CGCCCGGTGG TGTCGGTGGT GTATTTGGCA CAGAGCTTGA CGACCTGATC ATTGATGAGC TCATGGGCAT GGAAGATGAT CAGCGAATGC GTCCAGGAGC GACACGACCG ATGACGATTG GTGGAGAAAA AACCATGTCG ATGGCAAGAC CGATTCCAGG CGCCAGCTCC CGGGCTGGCT CAGGACACTC TGGAAGCCCG ATCACAATTC CAAACGCAAT GTCGAACAAT TTCAGACAGG TCGTCTCAAG TTCGGCGCCG ACGAGTTCGA TCGACATTGA GAAGATGATT GGCGCCGTGT CGAACGGCGG TGGGAATAGT GGCGGTGATA ATGATCCGGA GGACTATTAC CGCGACCGCA GGAAGAAGGA CATTCACAAT ATGATTGAAC GCCGACGAAG ATATAATATA AATGACAGGA TTAAGGAGCT CGGACAAATG TTGCCGAAGA ACACATCAGA AGACATGAAA CTCAACAAAG GAACAATTCT AAAAGCCTCG TGTGACTACA TCCGAGTGCT CCAAAAAGAT CGCGAGCAAG CGATGAAAAC CCAACAGCAG CAGAAATCGC TGGAATCGAC GGCTCACAAG TACGCCGACC GGGTGAAAGA GCTCGAGGAG ATGCTCGCCA GGCAGGGAGT GCAGGTCCCG CCATCGCATC TTCCACCGAT CCCGAAAGTG ATCGAGCGAC CGATTAAGCA GGAAATCGAC GAGTCGCCAC CAAATCACAC GCCGACCGGA TCGTTTGTGT CCTCATCCGG CTTCCTATCC GAGGTGACAA ACAACACCGC CGCCATGCAG ATCACATCGC CGAACGACTC GCGCCCGAAC AACTTCATGA ACAACTCGGC GCCGTCGGAC AGCTTCTTCT CGGTCGGATC GGCTAGCCCG CCAGATTATA GGACGAGCAG CGGCACCGCG TCGTGGAAGC TGCCCGGATC GAACGCCTTC TCCGACCTCA TGATGGACGA TCTCAACCCA ATGATGAACG GCGATCCACT CATCTCATCG GCCGGCGCTC ATCCATCACC ACACTTCCAC AGCTCACAAA TGTCACCAGA CATTCATTGG GACGCCTCTG GCTTCTCCCC AGACCCGATC AACACCCAAC AGTCAAACTC GGGTCATTAT CACATGGACT TTTCGTAA

--- Name of probe set: hlh-30 Probes designed on Wed, 03 Mar 10 23:37:47 -0700 42 probes designed for target of length 1497

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

tctcgttggaaatgtcaacg, hlh-30_1, 1, 21, 45 aaaaagacgccgatcgtctg, hlh-30_2, 2, 155, 50 accgcatcgacgagacatat, hlh-30_3, 3, 177, 50 gacttgctgctactgttact, hlh-30_4, 4, 202, 45 tttagacattttggccgacg, hlh-30_5, 5, 233, 45 ttttctaacagagtacgggc, hlh-30_6, 6, 263, 45 tctgtgaattttgtcgctgc, hlh-30_7, 7, 314, 45 aaatacaccaccgacaccac, hlh-30_8, 8, 356, 50 atcaggtcgtcaagctctgt, hlh-30_9, 9, 379, 50 catgcccatgagctcatcaa, hlh-30_10, 10, 401, 50 gacgcattcgctgatcatct, hlh-30_11, 11, 423, 50 tttctccaccaatcgtcatc, hlh-30_12, 12, 459, 45 atcggtcttgccatcgacat, hlh-30_13, 13, 484, 50 attgtgatcgggcttccaga, hlh-30_14, 14, 538, 50 attgttcgacattgcgtttg, hlh-30_15, 15, 560, 40 aacttgagacgacctgtctg, hlh-30_16, 16, 582, 50 tcaatgtcgatcgaactcgt, hlh-30_17, 17, 610, 45 attatcaccgccactattcc, hlh-30_18, 18, 662, 45 tgtgaatgtccttcttcctg, hlh-30_19, 19, 708, 45 tatcttcgtcggcgttcaat, hlh-30_20, 20, 733, 45 gagctccttaatcctgtcat, hlh-30_21, 21, 761, 45 gtgttcttcggcaacatttg, hlh-30_22, 22, 784, 45 gttgagtttcatgtcttctg, hlh-30_23, 23, 806, 40 gaggcttttagaattgttcc, hlh-30_24, 24, 829, 40 ttttggagcactcggatgta, hlh-30_25, 25, 856, 45 tttcatcgcttgctcgcgat, hlh-30_26, 26, 878, 50 agcgatttctgctgctgttg, hlh-30_27, 27, 901, 50 gtacttgtgagccgtcgatt, hlh-30_28, 28, 923, 50 atctcctcgagctctttcac, hlh-30_29, 29, 952, 50 tttcgggatcggtggaagat, hlh-30_30, 30, 1007, 50 atttcctgcttaatcggtcg, hlh-30_31, 31, 1036, 45 atgaggacacaaacgatccg, hlh-30_32, 32, 1086, 50 tttgtcacctcggataggaa, hlh-30_33, 33, 1111, 45 ttcggcgatgtgatctgcat, hlh-30_34, 34, 1144, 50 tgttcatgaagttgttcggg, hlh-30_35, 35, 1173, 45 tcctataatctggcgggcta, hlh-30_36, 36, 1233, 50 tccatcatgaggtcggagaa, hlh-30_37, 37, 1297, 50 cgttcatcattgggttgaga, hlh-30_38, 38, 1320, 45 tttgtgagctgtggaagtgt, hlh-30_39, 39, 1380, 45 tcccaatgaatgtctggtga, hlh-30_40, 40, 1402, 45 ttgactgttgggtgttgatc, hlh-30_41, 41, 1446, 45 tccatgtgataatgacccga, hlh-30_42, 42, 1468, 45 -- Input sequence with probe locations:

atggccgatgacgacgaccgcgttgacatttccaacgagacgcttgcctctttggtgggtcgaccgatga gcaactgtaaaggttgctct Probe # 1, 45% GC

gctcgtcgggcaatcggattcgagccaccccatccagacggcggctggtttctgcgccgacgaacccgag

gtggtcaccatccgcagacgatcggcgtcttttttcatatgtctcgtcgatgcggtcggatagtaacagt gtctgctagccgcagaaaaa tatacagagcagctacgcca     tcattgtca Probe # 2, 50% GC    Probe # 3, 50% GC        Probe # 4

agcagcaagtcaccatctccaccgtcggccaaaatgtctaaaaggccgaatggcccgtactctgttagaa tcgtcgttcag          gcagccggttttacagattt          cgggcatgagacaatctt , 45% GC             Probe # 5, 45% GC             Probe # 6, 45% GC

aatatcagccccgcggatccccacccagtgacggcagcgacaaaattcacagattcggagagagcccaac tt                              cgtcgctgttttaagtgtct Probe # 7, 45% GC

gcccggtggtgtcggtggtgtatttggcacagagcttgacgacctgatcattgatgagctcatgggcatg caccacagccaccacataaa  tgtctcgaactgctggacta  aactactcgagtacccgtac Probe # 8, 50% GC     Probe # 9, 50% GC     Probe # 10, 50% GC

gaagatgatcagcgaatgcgtccaggagcgacacgaccgatgacgattggtggagaaaaaaccatgtcga tctactagtcgcttacgcag               ctactgctaaccacctcttt     tacagct Probe # 11, 50% GC                 Probe # 12, 45% GC       Probe #

tggcaagaccgattccaggcgccagctcccgggctggctcaggacactctggaagcccgatcacaattcc accgttctggcta                                 agaccttcgggctagtgtta  g 13, 50% GC                                    Probe # 14, 50% GC    P

aaacgcaatgtcgaacaatttcagacaggtcgtctcaagttcggcgccgacgagttcgatcgacattgag tttgcgttacagcttgtta gtctgtccagcagagttcaa        tgctcaagctagctgtaact robe # 15, 40% GC   Probe # 16, 50% GC          Probe # 17, 45% GC

aagatgattggcgccgtgtcgaacggcggtgggaatagtggcggtgataatgatccggaggactattacc ccttatcaccgccactatta Probe # 18, 45% GC

gcgaccgcaggaagaaggacattcacaatatgattgaacgccgacgaagatataatataaatgacaggat gtccttcttcctgtaagtgt    taacttgcggctgcttctat        tactgtccta Probe # 19, 45% GC      Probe # 20, 45% GC          Probe # 21

taaggagctcggacaaatgttgccgaagaacacatcagaagacatgaaactcaacaaaggaacaattcta attcctcgag  gtttacaacggcttcttgtg  gtcttctgtactttgagttg   ccttgttaagat , 45% GC    Probe # 22, 45% GC    Probe # 23, 40% GC     Probe # 24,

aaagcctcgtgtgactacatccgagtgctccaaaaagatcgcgagcaagcgatgaaaacccaacagcagc tttcggag      atgtaggctcacgaggtttt  tagcgctcgttcgctacttt   gttgtcgtcg 40% GC        Probe # 25, 45% GC    Probe # 26, 50% GC     Probe # 27

agaaatcgctggaatcgacggctcacaagtacgccgaccgggtgaaagagctcgaggagatgctcgccag tctttagcga ttagctgccgagtgttcatg         cactttctcgagctcctcta , 50% GC   Probe # 28, 50% GC           Probe # 29, 50% GC

gcagggagtgcaggtcccgccatcgcatcttccaccgatcccgaaagtgatcgagcgaccgattaagcag tagaaggtggctagggcttt        gctggctaattcgtc Probe # 30, 50% GC          Probe # 31, 45%

gaaatcgacgagtcgccaccaaatcacacgccgaccggatcgtttgtgtcctcatccggcttcctatccg cttta                             gcctagcaaacacaggagta     aaggataggc GC                               Probe # 32, 50% GC       Probe # 33

aggtgacaaacaacaccgccgccatgcagatcacatcgccgaacgactcgcgcccgaacaacttcatgaa tccactgttt            tacgtctagtgtagcggctt         gggcttgttgaagtactt , 45% GC              Probe # 34, 50% GC           Probe # 35, 45% GC

caactcggcgccgtcggacagcttcttctcggtcggatcggctagcccgccagattataggacgagcagc gt                                       atcgggcggtctaatatcct Probe # 36, 50% GC

ggcaccgcgtcgtggaagctgcccggatcgaacgccttctccgacctcatgatggacgatctcaacccaa aagaggctggagtactacct  agagttgggtt Probe # 37, 50% GC    Probe # 38,

tgatgaacggcgatccactcatctcatcggccggcgctcatccatcaccacacttccacagctcacaaat actacttgc                                       tgtgaaggtgtcgagtgttt 45% GC                                         Probe # 39, 45% GC

gtcaccagacattcattgggacgcctctggcttctccccagacccgatcaacacccaacagtcaaactcg agtggtctgtaagtaaccct                       ctagttgtgggttgtcagtt  agc Probe # 40, 45% GC                         Probe # 41, 45% GC    Pro

ggtcattatcacatggacttttcgtaa ccagtaatagtgtacct be # 42, 45% GC