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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtcttgactaaattatttaatgttatgaaaaaagactaggcacattaatttattatgatggctgataagcaaatgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGAATTGGGTTACTCGTTCGCATCTGGTGACTCAAGGTTTACTCGCCTAATG

Basic information

species Oryza sativa
transcript LOC_Os01g43540.1
intron # 2
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88351723|gb|CI617448.1|CI617448
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88391756|gb|CI603275.1|CI603275
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88372467|gb|CI610790.1|CI610790
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88406262|gb|CI596389.1|CI596389
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88403836|gb|CI611491.1|CI611491
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|29661448|gb|CB657723.1|CB657723
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|58586137|gb|CF984445.1|CF984445
EST:     AAGGCCATTGAACTTGACACATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCGGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88721089|gb|CI744388.1|CI744388
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88359446|gb|CI620977.1|CI620977
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88399100|gb|CI603767.1|CI603767
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAACCTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88394529|gb|CI605870.1|CI605870
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACCTGGAAAAGCAGCTCTTG
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAAC-TGCAAAAGCAGCTCTTG
EST: gi|88392765|gb|CI623996.1|CI623996
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88761660|gb|CI771216.1|CI771216
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88314415|gb|CI604899.1|CI604899
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88366470|gb|CI610615.1|CI610615
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88362624|gb|CI608773.1|CI608773
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|29625917|gb|CB630928.1|CB630928
EST:     AAGGCCATTGAACTTGACACATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCGGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|33797195|gb|CF324461.1|CF324461
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88386386|gb|CI573003.1|CI573003
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88398004|gb|CI585507.1|CI585507
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|29660561|gb|CB656836.1|CB656836
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88399716|gb|CI583450.1|CI583450
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88717989|gb|CI741499.1|CI741499
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88742943|gb|CI766451.1|CI766451
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|163920381|gb|EG714468.1|EG714468
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88695854|gb|CI737431.1|CI737431
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|2312755|gb|C28910.1|C28910
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTTG
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTT-G
EST: gi|88426989|gb|CI601950.1|CI601950
EST:     AAGGCCATTGAACTTGACC-ATCAATGCACAAGGATTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|286480|gb|D15287.1|D15287
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|12404713|gb|AU166314.1|AU166314
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88364728|gb|CI612543.1|CI612543
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAATGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTTGCAAAAGCAGCTCTTG
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACT-GCAAAAGCAGCTCTTG
EST: gi|88423764|gb|CI617116.1|CI617116
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|29659289|gb|CB655564.1|CB655564
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88371307|gb|CI600155.1|CI600155
EST:     AAGGCCATTGAACTTGAACCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGAAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88763618|gb|CI773065.1|CI773065
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|29669129|gb|CB665404.1|CB665404
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|29658976|gb|CB655251.1|CB655251
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88357631|gb|CI623685.1|CI623685
EST:     AAGGCCATTGAAATTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|88316637|gb|CI622883.1|CI622883
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
EST: gi|2309664|gb|C25819.1|C25819
EST:     AAGGNCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTG
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTG
EST: gi|33678214|gb|CF306453.1|CF306453
EST:     AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG                         CGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA
genomic: AAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 70 (upstream exon), 69 (downstream exon)
Score: 118

AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGGgtcagtcttg ... tgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGAATTGGGTTACTCGTTCGCATCTGGTGACTCAAGGTTTACTCGCCTAATG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaagactaggcacattaatttattatgatggctgataagcaaatgatctttagCGCTGCATGTATACGACTGGAGGAGTATCAAACTGCAAAAGCAGCTCTTGAATTGGGTTACTCGTTCGCATCTGGTGACTCAAGGTTTACTCGCCTAATG
                                                tcttt  CT-rich tract
             acattaatttattatg  TA-rich tract