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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT

Basic information

species Oryza sativa
transcript LOC_Os01g25610.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S461_1V6.1 (Physcomitrella patens), 3'ss of exon 1
---agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
     ||   ||   | |   ||| |||   |            |   |||  | |  |||     | |  |    ||| |    || || |    |    ||||  | || |||||||||||||| ||||||||||||||||||||||| |||||||| |||||| | || || || || 
cctgcaagcttaaaatgggggtgg-tttagggttttgaagttggttgatgatgaggaagtttgagtcgtgttctgagttctgtttctcttgtgcgttt--tagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTTGACAAGTTGGGTGGTGCCTTC

upper sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S2_16V6.1 (Physcomitrella patens), 3'ss of exon 1
--agaattatattgttgtac-tggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
      |||  |  |||| |    | |||  |  |       ||    ||  | | |||    | |      |   ||  ||| | |   | | ||||  |||||  | || |||||||||||| | ||||||||||||||||||| |||||||||||| |||||| | || || || |||
tttcgtttacgtcattgttcgcttcatttttgtggtcggtttatcgactggattt-tggcctgtcatg-gtctcctgtattcatctttccaatctctgg-cagGCTCGCGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAGGCACTGGATGCTTGACAAGTTGGGTGGTGCCTTT

upper sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S38_194V6.1 (Physcomitrella patens), 3'ss of exon 1
agaattatattgttgtactggctt--ttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaac--agGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
    ||||    ||       |||  || |   | |  |  | |  ||  ||   ||  | |       |||        | |  |||| | || ||     ||||  | || |||||||||||| | |||||||||||||| ||||  || |||||||| |||||| | || || || || 
----ttatcggtttacgtaaacttgctttacttgtacgaagagtgcgtttgttcctgagtgacgtgtggcttgttacgaactaattgttttcttgtgtctctagGCTCGCGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCTCCCAGACATTGGATGCTTGACAAGTTGGGTGGTGCCTTC

upper sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
-agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaa-cagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
 ||  |  | | || | |     ||  ||   ||       || |     | | |  ||  | || |  ||   ||| |     ||||||||| |    |||||  | || |||||||||||| | ||||||||||||||||||||||| ||||||||||||||  | || || || |||
gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttt--tttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT

upper sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S282_25V6.1 (Physcomitrella patens), 3'ss of exon 1
agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaa---cagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
     |  | ||     | || | ||  | |   |    | |   |||  |    ||| |     ||| |   | |    |  ||||    | |  |   |||||  | || |||||||||||| | ||||||||||||||||| ||||| |||||||| |||||||| || || || || 
-atgctggagtgagaatcagggtcttcggtatt-ttgggactggctgatcaccctgttcaattggtacgtg-tgctaaacatgtgttgcggtgttgattccagGCTCGCGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCTAAGCATTGGATGCTTGACAAGCTGGGTGGCGCCTTC

upper sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
lower sequence: EFJ14824 (Selaginella moellendorffii), 3'ss of exon 1
agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
                                           || |||   | || ||       |  | ||| |       | || | || ||  |||| | | ||   ||||||||||||||||  ||||||||| |||||||| ||||||||   |||||||||||| || |||
------------------------------------------gtgagagcgcgcggctatcgcgggatcttacgat-------tcttgtgttgtg--cagGTGCGCGGGCCGAAGAAGCATCTCAAGGTGCTCAATGCCCCCAAGCATTGGATGCTGAGCAAGCTCGGCGGTGCCTTT

upper sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
lower sequence: EFJ26570 (Selaginella moellendorffii), 3'ss of exon 1
agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
                                           || |||   | || ||       |  | ||| |       | || | || ||  |||| | | ||   |||||||||||| |||  ||||||||| |||||||| ||||||||   |||||||||||| || || 
------------------------------------------gtgagagcgcgcggctatcgcgggatcttacgat-------tcttgtgttgtg--cagGTGCGCGGGCCGAAGAAGCATCTGAAGGTGCTCAATGCCCCCAAGCATTGGATGCTGAGCAAGCTCGGCGGTGCCTTC

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|87024077|gb|CI291730.1|CI291730
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88571365|gb|CI662738.1|CI662738
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|87007839|gb|CI287683.1|CI287683
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88358658|gb|CI618746.1|CI618746
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|117249752|gb|CT863374.1|CT863374
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88423077|gb|CI613378.1|CI613378
EST:     CGGGGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GGGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCAAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|33661683|gb|CF292650.1|CF292650
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|33677983|gb|CF306222.1|CF306222
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|33828630|gb|CF340134.1|CF340134
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|58682645|gb|CK071332.1|CK071332
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|86906924|gb|CI291271.1|CI291271
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGTAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88725669|gb|CI748928.1|CI748928
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88431411|gb|CI576941.1|CI576941
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|58686532|gb|CK075219.1|CK075219
EST:     CGGCGTGGTGGTCTCCCCCTCCGGGGACGTA-CTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88424643|gb|CI606442.1|CI606442
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|33829204|gb|CF340424.1|CF340424
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88723386|gb|CI746896.1|CI746896
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88325817|gb|CI649654.1|CI649654
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88358593|gb|CI617679.1|CI617679
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GGGAGGGGATTGAAGAAGCATCTAAAGAGGCTCAATGCGCCCAAGAACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|86907280|gb|CI292843.1|CI292843
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88692017|gb|CI735592.1|CI735592
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88732202|gb|CI757050.1|CI757050
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88365015|gb|CI616434.1|CI616434
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|86906906|gb|CI291262.1|CI291262
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|163929108|gb|EG713029.1|EG713029
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|88387470|gb|CI582988.1|CI582988
EST:     CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: CGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
EST: gi|58675811|gb|CK064498.1|CK064498
EST:     GGCGTGGTGGTCTCCCCCTCCGGCGACGTACGCTCGAGCTCGCAACCATG                         GCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG
genomic: GGCGTGGTGGTCTCCCCCTCCGGCGACGTA-GCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGG

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: 75 (upstream exon), 70 (downstream exon)
Score: 42

TCCCTCTCTCCTCTTTGGCGGCGGCGGCGGAAGAGAGCGACGCAGACGGACGGCGTGGTGGTCTCCCCCTCCGGCGACGTAGCTCGAGCTCGCAACCATGgtgagcgccg ... ttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT
                                        ttattttct  CT-rich tract
           ttaataacatacttaa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaacagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - -ttgttgt
- - - - - - - - - - - - - - - -gcatcac
- - - - - - - - - - - - - - - - - - - - - - - - gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaca