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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTTTGACACCATATGCCCCATTAGTAGCAGGATCAGTCGCACGTTCTTTGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctccattggaagtttctggttattagtatttgtgtttctgtgaaaccaattatgtctataatttttatttttgggcatacaatttgacaaatgtaataatttctttctcacttaaaagcacctaacaatcactattctatgttcacag

Basic information

species Oryza sativa
transcript LOC_Os08g29720.1
intron # 5
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 5
lower sequence: GRMZM2G059018_T01 (Zea mays), 5'ss of exon 5
TGGTTTGACACCATATGCCCCATTAGTAGCAGGATCAGTCGCACGTTCTTTGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctccattggaagtttct--------ggttattagtatttgtgtttctgtgaaaccaattatgtct----ata---------atttttatttttgggcatacaatttgacaaatgtaataatttctttctcacttaaaagca-----cctaacaatcactattctatgttcacag
||| |||||||||||||||||  ||||||||||||| || ||||| || || || || ||||||||||| ||||||||| | |||||||| || ||||||||| | ||||||  ||||||| |        ||||  |   || ||| |   |   |    | ||||||||    ||          ||  |  ||| || ||| | | || | |  ||| ||  ||||      || | |||| ||      | |  | |||||| |||||| | ||||
TGGCTTGACACCATATGCCCCGCTAGTAGCAGGATCTGTTGCACGCTCGTTAGCATGTATTGCTTGTTCTCCAATTGAGCTCGCAAGGACGCGTATGCAGgtacacctccatgtgaagttttttatatatgggttcatgccatatgtatagtttatagtttagttatgtcttaccatgcattctcagatcatcgtttctgtgcaca-agttagtcttatgcaactattttccctccattaaaaaccaaaatatcaagtagtcactagtctatggtaacag

upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G106703_T02 (Zea mays), 5'ss of exon 5
TGGTTTGACACCATATGCCCCATTAGTAGCAGGATCAGTCGCACGTTCTTTGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctccattggaagtttctggttattagtatttgtgtttctgtgaaaccaattatgtctataatttttatttttgggcatacaatttgacaaatgtaataatttctttctcacttaaaagcacctaacaatcactattctatgttcacag
||| |||||||||||||||||| |||||||||||||||| |||||||| || || |||||||||||||| |||||||||||||||||||| || ||||||||| ||||||||  ||||| |       || |||| || |||  ||     |||  ||| |   | ||   ||| | |    | ||| ||   |  |  | || ||||||                                            
TGGCTTGACACCATATGCCCCACTAGTAGCAGGATCAGTTGCACGTTCGTTAGCATGCATTGCTTGTTCTCCAATTGAGTTGGCAAGGACGCGTATGCAGgtacatctccatgtgaagtgt-------tttgtatgtgggttcatg-----ccatatatatagtttatagctatgtcttataacaca-ttcatctcagatcatcatttctgca-----------------------------------------

upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT2G46320.3 (Arabidopsis thaliana), 5'ss of exon 5
TGGTTTGACACCATATGCCCCATTAGTAGCAGGATCAGTCGCACGTTCTTTGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctccattggaagtttctggttattagtatttgtgtttctgtgaaaccaattatgtctataatttttatttttgggcatacaatttgacaaatgtaataatttctttctcacttaaaagcacctaacaatcactattctatgttcacag
   ||||||    |||| |||  |||| || ||  || | ||||| || |||||||| ||  |||||| |||  ||||||| |||||||||||||||||||||  |||  |    | | || | |   | | |  ||||  |  |||| |   |   |     |     |  || |     | |    |||   ||  |                                                       
ATCTTTGACGGTTTATGTCCCTCTAGTTGCTGGGACAATAGCACGCTCCTTGGCTTGTATCTCTTGTTACCCTGTTGAGTTAGCAAGGACACGGATGCAGgtaactcttta----aggattttcgccctcattcattgtaatggtgtggagatatggacacagaaccaatggatatcgattcttgtgttttactaacag-------------------------------------------------------

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|218490878|gb|FG947384.1|FG947384
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|218497482|gb|FG960434.1|FG960434
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|33683081|gb|CF311320.1|CF311320
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|29661210|gb|CB657485.1|CB657485
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|218485410|gb|FG945021.1|FG945021
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|58693531|gb|CK082218.1|CK082218
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|58672713|gb|CK061399.1|CK061399
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|25797756|gb|CA753717.1|CA753717
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|29680567|gb|CB676842.1|CB676842
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|218496315|gb|FG954193.1|FG954193
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
EST: gi|29677504|gb|CB673779.1|CB673779
EST:     TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAG                         GCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA
genomic: TGGCTTGCATTGCTTGTTCCCCAATTGAGTTGGCAAGGACACGGATGCAGgtatatctcc ... atgttcacagGCATATAAAGAATTTCGTCCTGGAGTAAAGCCTCCTGGAATGTGGAAAACA