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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaattaacatgtataggcaaatgagaaagttttggactattaggctagatattttcccaactacgaccagaggctgaagctttgcttttttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG

Basic information

species Oryza sativa
transcript LOC_Os03g17920.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g17920.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G158261_T03 (Zea mays), 3'ss of exon 3
-------ttaattaacatgtatag---gcaaatgagaaagttttggactattaggctagatattttcccaactacgaccagaggctgaagctttgcttttttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG-----------------------------------------------------
         || |  ||||| ||    | |||   || |||||  || | ||  |  | ||  ||||     |  |  || | | ||  | || |    |||||||||||||||| || ||||||||||||| ||||||||||||||||| |||                                                        
accccccaaaaatgtcatgtgtactttggaaaaatgagagtttatgatttttctggcaaat--tttcttggatgtg--caaatgatg--gtttcg----tttgtttgcagATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGGTGTAATTTTTTTCCTCTCAGCAAGCTTATTATTGTTATATTCTTCCCAATCTCC

upper sequence: LOC_Os03g17920.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G158261_T02 (Zea mays), 3'ss of exon 3
-------ttaattaacatgtatag---gcaaatgagaaagttttggactattaggctagatattttcccaactacgaccagaggctgaagctttgcttttttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
         || |  ||||| ||    | |||   || |||||  || | ||  |  | ||  ||||     |  |  || | | ||  | || |    |||||||||||||||| || ||||||||||||| ||||||||||||||||| |||   
accccccaaaaatgtcatgtgtactttggaaaaatgagagtttatgatttttctggcaaat--tttcttggatgtg--caaatgatg--gtttcg----tttgtttgcagATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTG--

upper sequence: LOC_Os03g17920.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G158261_T01 (Zea mays), 3'ss of exon 3
-------ttaattaacatgtatag---gcaaatgagaaagttttggactattaggctagatattttcccaactacgaccagaggctgaagctttgcttttttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
         || |  ||||| ||    | |||   || |||||  || | ||  |  | ||  ||||     |  |  || | | ||  | || |    |||||||||||||||| || ||||||||||||| ||||||||||||||||| |||   
accccccaaaaatgtcatgtgtactttggaaaaatgagagtttatgatttttctggcaaat--tttcttggatgtg--caaatgatg--gtttcg----tttgtttgcagATAACCGTTGATGGTGAAGTTGTCACTGATCCAGATATGACTCTGGT

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|33799285|gb|CF325499.1|CF325499
EST:     GTGGATTAAGAGGATTCGTGATGGACAG                         ATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCT-AG
genomic: GTGGATTAAGAGGATTCGTGATGGACAGgtaggtcatc ... ttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
EST: gi|88425251|gb|CI564768.1|CI564768
EST:     GTGGATTAAGAGGATTCGTGATGGACAG                         ATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
genomic: GTGGATTAAGAGGATTCGTGATGGACAGgtaggtcatc ... ttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
EST: gi|88388351|gb|CI627890.1|CI627890
EST:     GTGGATTAAGAGGATTCGTGGTGGACAG                         ATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
genomic: GTGGATTAAGAGGATTCGTGATGGACAGgtaggtcatc ... ttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
EST: gi|88392883|gb|CI614765.1|CI614765
EST:     GTGGATTAAGAGGATTCGTGATGGACAG                         ATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
genomic: GTGGATTAAGAGGATTCGTGATGGACAGgtaggtcatc ... ttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
EST: gi|88317451|gb|CI628100.1|CI628100
EST:     GTGGACTAAGAGGATTCGTGATGGACAG                         ATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
genomic: GTGGATTAAGAGGATTCGTGATGGACAGgtaggtcatc ... ttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagatattttcccaactacgaccagaggctgaagctttgcttttttgtttgcagATAACAGTAGATGGTGAAGTTGCCACTGATCCAGATATGATTCTCAG
                                   ctttgcttttttgttt  CT-rich tract
                                         ttttttgttt  TA-rich tract