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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCACACGTGGTGTCATTTTGGGAAGTGAGCCTATTTGCCCACCTGACTGCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgactttaattcctttttatagttttatgcaagtatcgatttctagagcacagagaatttaacacttttggttaattggttgttacag

Basic information

species Oryza sativa
transcript LOC_Os08g29720.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G106703_T02 (Zea mays), 5'ss of exon 3
ATGCACACGTGGTGTCATTTTGGGAAGTGAGCCTATTTGCCCACCTGACTGCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgactttaattcctttttatag------ttttatgcaagtatcgatttctagagcacagagaatttaacacttttggttaattggttgttacag
||||||||||||| || |  | |||||||||||  |||| || ||||| ||||| ||||||||||||||||||||||||||||||||||| ||||||||||||        || |||| ||||  ||       ||||| ||||||  |  | | |   | ||||| ||  | |||    || |||||||||||||  ||
ATGCACACGTGGTCTCTTACTAGGAAGTGAGCCAGTTTGTCCTCCTGATTGCTTCCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTGGTTAGACAGgtagctaagtgttcattctttttggtacctcgtcttttaagcaagtggcagtatatgatggacagataaactcacagcagtgcttaattggttgttttag

upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G059018_T02 (Zea mays), 5'ss of exon 3
ATGCACACGTGGTGTCATTTTGGGAAGTGAGCCTATTTGCCCACCTGACTGCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgactttaattcctttttatag-ttttatgcaagtatcgatttctagagcacagagaatttaacacttttggttaattggttgttacag
 |||||||||||| |  | || |||||||||||  |||| || ||||||||||| ||||||||||| ||||||||||||||||||||||| |||||||||||||       || |||  || |  |   ||||| ||||||  | || | |   | ||||| ||  | ||     || |||  ||||||||  ||
GTGCACACGTGGTCTTGTATTAGGAAGTGAGCCAGTTTGTCCTCCTGACTGCTTCCAGTACAAGGGGACACTTGATGTATTCTTGAAAGTGGTTAGACAGgtaactaagtgttcattttttatagtttcttttaagcaagtggcaatgtatgatggacagataaactcactacagtgttta--tggttgttttag
















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|218497482|gb|FG960434.1|FG960434
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|29661210|gb|CB657485.1|CB657485
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|7273806|gb|AU083350.1|AU083350
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTA
EST: gi|58693531|gb|CK082218.1|CK082218
EST:     GCTTTCAGTACAAGGGAACAC-TGATGTATTCTTGAGAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|58672713|gb|CK061399.1|CK061399
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|25797756|gb|CA753717.1|CA753717
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|58607537|gb|CK035570.1|CK035570
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|7274031|gb|AU083575.1|AU083575
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAN-A
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|29680567|gb|CB676842.1|CB676842
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
EST: gi|29677504|gb|CB673779.1|CB673779
EST:     GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAG                         GAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA
genomic: GCTTTCAGTACAAGGGAACACTTGATGTATTCTTGAAAGTTGTTAGACAGgtaatgtgac ... gttgttacagGAAGGATTTGGTAGATTATGGAGAGGTACAAATGCAGGCTTGGCGTTAGCA