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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaagctgacatcctaaagtgcattttgattcccatgtgttctgttttcacgataggttttgatctgtttcttttttatgtaaaccag

Basic information

species Oryza sativa
transcript LOC_Os02g56850.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g56850.4 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G806449_T02 (Zea mays), 5'ss of exon 9
AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaagctgacatcctaaagtgcattttgattcc----catgtgttctgttttcacgataggttttgatctgtttctttt--ttatgtaaaccag---
|||||| ||||||||||||||  |  |||||||||| ||||||||||||||||||||||  || ||||||||||||||||| |||||||||| ||   ||||  | | | |||||||||||||| |    |||  |||||   ||   | |  ||||   | | |||       ||  ||||| | |   
AGGTTTTGATGATGAGATGAGAGCTATTGTTGCAAGCAACCTTGAGGGAAGGGGAATCAAGTTGCATCCAGGGACAAATCTCTCTGAGgtgatttttactgaagtacaacagtgcattttgatttctaaacataagttctaagtt--gggtcagtttcattttattttaaccagttgagtaaaacggctg

upper sequence: LOC_Os02g56850.4 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G806449_T01 (Zea mays), 5'ss of exon 8
AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaagctgacatcctaaagtgcattttgattcccatgtgttctgttttcacgataggttttgatctgtttcttttttatgtaaaccag
|||||| ||||||||||||||  |  |||||||||| ||||||||||||||||||||||  || ||||||||||||||||| |||||||||| ||   ||||  | | | |||||||||||||| | |    |   ||| | |        || | || ||||| |||| || | ||||||
AGGTTTTGATGATGAGATGAGAGCTATTGTTGCAAGCAACCTTGAGGGAAGGGGAATCAAGTTGCATCCAGGGACAAATCTCTCTGAGgtgatttttactgaagtacaacagtgcattttgatttctaaacataa-gttctaag-------ttgggtcagtttcatttt-attttaaccag
















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|58692171|gb|CK080858.1|CK080858
EST:     ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG                         TTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
genomic: ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaag ... tgtaaaccagTTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
EST: gi|27578226|gb|CB000921.1|CB000921
EST:     ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG                         TTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
genomic: ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaag ... tgtaaaccagTTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
EST: gi|58601900|gb|CK012428.1|CK012428
EST:     ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG                         TTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
genomic: ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaag ... tgtaaaccagTTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
EST: gi|319908658|gb|HS977786.1|HS977786
EST:     ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG                         TTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
genomic: ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaag ... tgtaaaccagTTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGAGAGGAG
EST: gi|4714976|gb|AU056093.1|AU056093
EST:     ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG                         TTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGGGAGAGGA
genomic: ACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAGgtgagttaag ... tgtaaaccagTTGAGTAAAACAGCCGATGGCATAAAAGTTGTCACTGACAAAGG-AGAGGA