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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctattcctgaattcttatgtccttcataccccttgttgcaagaccagatatacacagggtcctgtatattgagtattcttatcttctatgtgcagCCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCTAATAAGCTTATTCAACTGGGAAATAGCAACA

Basic information

species Oryza sativa
transcript LOC_Os05g51490.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51490.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM5G812498_T01 (Zea mays), 3'ss of exon 3
gtaa-tctattcctgaattcttatgtccttcataccccttgttgcaagaccagatatacacagggtcctgtatattgagtattcttatcttctatgtgcagCCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCTAATAAGCTTATTCAACTGGGAAATAGCAACA
|||| |||||| ||| || ||| |   |||       ||  | ||  | | |  |    |         |||| |||| ||| |    ||| | | || |||||||||||| ||| |||||||| |  ||||||| ||||||||||||||||||||||||||||||||| |||||||| |||||| | |||||||| ||||
gtaaatctatttctggatacttgtcaacttggc-tttctcttggctgggctatgtcgcta---------gtattttgattatgc----cttgtgtttgtagCCAACATTACCATCAGAAGGGAAAGAACCTCCAAGAATTGGGAATATTGGGCACATAACTCGAATAGCGAATAAGCTCATTCAATTTGGAAATAGTAACA
















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|58611996|gb|CK039708.1|CK039708
EST:     AAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACA                         CCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGG
genomic: AAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACAgtaatctatt ... ctatgtgcagCCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGG
EST: gi|58611304|gb|CK039016.1|CK039016
EST:     AATTCTTGCTGCTGAAAGAAGTTCCTCCCTGGTCAACAGAATCTAACACA                         CCAACATTACTATCTG
genomic: AATTCTTGCTGCTGAAAGAAGTTCCTCCCTG-TCAACAGAATCTAACACAgtaatctatt ... ctatgtgcagCCAACATTACTATCTG
EST: gi|58653975|gb|CK042655.1|CK042655
EST:     AAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACA                         CCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGG
genomic: AAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACAgtaatctatt ... ctatgtgcagCCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGG
EST: gi|58689163|gb|CK077850.1|CK077850
EST:     AAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACA                         CCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGG
genomic: AAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACAgtaatctatt ... ctatgtgcagCCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaccagatatacacagggtcctgtatattgagtattcttatcttctatgtgcagCCAACATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCTAATAAGCTTATTCAACTGGGAAATAGCAACA
                                 tattcttatcttct  CT-rich tract
                                 tattcttat  TA-rich tract