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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGTGTCCTGCTCCTGGATGTGAATATGCTGTAGAATTTGTCATGGGCAGTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAACgtgagtactggacctgccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttgcag

Basic information

species Oryza sativa
transcript LOC_Os04g41470.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G157933_T01 (Zea mays), 5'ss of exon 5
ATGGTGTCCTGCTCCTGGATGTGAATATGCTGTAGAATTTGTCATGGGCAGTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAACgtgagtactggacctg-ccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttg--cag
|||||||||||  |||||||| |||||||| |  ||||| |||||||||||||| ||||||||||| || |||||||||||||| || ||||||||||| |||||| ||| | |||   | |||||||     | |||||||| |   | ||||| |    |    |||   |||
ATGGTGTCCTGTGCCTGGATGCGAATATGCAGCGGAATTCGTCATGGGCAGTGGCAGCTATGATGTTAATTGCAACTGTTCATATGGGTTTTGTTGGAATgtgagtgctgaaactgattagttcatttttacataatcagcagtgagcagaccatatattttcttcttttttcag

upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 6
ATGGTGTCCTGCTCCTGGATGTGAATATGCTGTAGAATTTGTCATGGGCAGTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAACgtgagtactggacctg-ccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttgcag
|||||||||||| |||||||||||||| || || ||||| |||||||||||||| ||||||||||| || |||||||||||||| || ||||||||||| |||||| ||  | |||   | |||||||     | ||||||||  |||| |   | |    |    ||| |||
ATGGTGTCCTGCGCCTGGATGTGAATACGCAGTGGAATTCGTCATGGGCAGTGGCAGCTATGATGTTAATTGCAACTGTTCATATGGGTTTTGTTGGAATgtgagtgctcaaactgattagttcatttttacataatcagcagaccatatattttattcttt----ttttcag

upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 6
ATGGTGTCCTGCTCCTGGATGTGAATATGCTGTAGAATTTGTCATGGGCAGTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAACgtgagtactggacctg-ccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttg--cag
|||||||||||| ||||||||||||||||| |  ||||| |||||||||||||| |||||||| || || |||||||||||||| || ||||||||||| |||||| ||| | |||   | |||||||     | ||| |||| |   | ||||| |    |    |||   |||
ATGGTGTCCTGCGCCTGGATGTGAATATGCAGCGGAATTCGTCATGGGCAGTGGCAGCTATGACGTTAATTGCAACTGTTCATATGGGTTTTGTTGGAATgtgagtgctgaaactgattagttcatttttacataatctgcagtgagcagaccatatattttcttcttttttcag

upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G431691_T01 (Zea mays), 5'ss of exon 5
ATGGTGTCCTGCTCCTGGATGTGAATATGCTGTAGAATTTGTCATGGGCAGTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAACgtgagtactggacctg-ccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttg--cag
|||||||||||| |||||||| |||||||| |  ||||| |||||||||||||| ||||||||||| || |||||||||||||| || ||||||||||| ||||||  || | |||   | |||||||     | |||||||| |   ||||||| |    |    |||   |||
ATGGTGTCCTGCGCCTGGATGCGAATATGCAGCGGAATTCGTCATGGGCAGTGGCAGCTATGATGTTAATTGCAACTGTTCATATGGGTTTTGTTGGAATgtgagtgttgaaactgattagttcatttttacataatcagcagtgagcaaaccatatattttcttcttttttcag

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|86901737|gb|CI310499.1|CI310499
EST:     GTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAAC                         TGCACTGAGGAAGCTCATCGTCCGGTAGACTGTGCCACTGTTTCAAAGTGG
genomic: GTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAACgtgagtactg ... aaatttgcagTGCACTGAGGAAGCTCATCGTCCGGTAGACTGTGCCACTGTTTCAAAGTGG
EST: gi|29623493|gb|CB628504.1|CB628504
EST:     GTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAAC                         TGCACTGAGGAAGCTCATCGTCCGGTCGACTGTGCCACTGTTTCAAAGTGG
genomic: GTGGTAGCTATGATGTGAACTGCAACTGTTCATACGGCTTTTGTTGGAACgtgagtactg ... aaatttgcagTGCACTGAGGAAGCTCATCGTCCGGTAGACTGTGCCACTGTTTCAAAGTGG