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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAGCTGTTGTTTCTTTTTACCTGGTTGTGATATCTGACCTCTTCCATAGCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGGgtaagctgttcatttcctgctctgttctgagaaagttaaattttctcatataatttaattatgcacacctttcagaacaaaataaaaagaaaatctaaaaaatgttcttcatattgttctttgcatcaagtggcacaacatgcaaatgataaccgtataatgtatcattttaaattcatgtattgtgcag

Basic information

species Oryza sativa
transcript LOC_Os01g60120.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g60120.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G021589_T02 (Zea mays), 5'ss of exon 4
TGCAGCTGTTGTTTCTTTTTACCTGGTTGTGATATCTGACCTCTTC------------CATAGCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGGgtaagctgttcatttc-------ctgctctgttctgagaaagttaaattttctcatataatttaattatgcacacctttcagaacaaaataaaaa-gaaaatctaaaaaatgttcttcatattgttctttgcatcaagtggcacaacatgcaaatgataaccgtataatgtatcattttaaattcatgtattgtgcag
            |||||| ||||||||  |||| ||||||||||||            || |  | |||||||||||| ||||| ||||||||||| |||  ||||||||||||||||||  ||||||        | |||| | |    || |  ||    | |  | |   |  ||  ||||   ||||||||| ||||  || | |||||| | | ||    |     | |||  || ||||                                                                 
------------TTCTTTCTACCTGGTCATGATCTCTGACCTCTTCAATGAAGATGCGCACAATAGCATAATAATTGACAGAAAATCATGGCTATCCGATTGCATGTTTGGGgtaagctgcgcatttcaactttatttctctctccgtttaaggacaatcgatttgttgtccatgtatactgcatgtctttcagaataaaaagaacatgaaaatgttataagaaataagt-tgttgc-ctctgcag----------------------------------------------------------------
















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|29669062|gb|CB665337.1|CB665337
EST:     AGAAACTCATGGCTATCTGATGCCATGTTTGGG                         GTCTCGATTGGTTA-TTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
genomic: AGAAACTCATGGCTATCTGATGCCATGTTTGGGgtaagctgtt ... tattgtgcagGTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
EST: gi|87023693|gb|CI286444.1|CI286444
EST:     GCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGG                         GTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
genomic: GCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGGgtaagctgtt ... tattgtgcagGTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
EST: gi|29664738|gb|CB661013.1|CB661013
EST:     GCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGG                         GTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
genomic: GCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGGgtaagctgtt ... tattgtgcagGTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
EST: gi|8527754|gb|AU092569.1|AU092569
EST:     GCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGG                         GTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
genomic: GCAACATAATAATTGATAGAAACTCATGGCTATCTGATGCCATGTTTGGGgtaagctgtt ... tattgtgcagGTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
EST: gi|29669064|gb|CB665339.1|CB665339
EST:     ATGCCATGTTTGGG                         GTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC
genomic: ATGCCATGTTTGGGgtaagctgtt ... tattgtgcagGTCTCGATTGGTTACTTTTTGACAGATTTGGTGATGATTCTGTGGTATTTC