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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagaaattccaagcttagacctgttctgatgaattatgacaccccattacttttttgctttgcctgttgttgagttcatgttttgtcttctcttctttccggtttcaaaataaagCATTCGAAGGTTGAAGGGGCTTATTGCTTGGGTGTGTTTCAGAATGGAAAAGATCCGACAACACTATTAGGGG

Basic information

species Oryza sativa
transcript LOC_Os07g40260.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g40260.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G090715_T01 (Zea mays), 3'ss of exon 6
gtatgagaaattccaagcttagacctgttctgatgaattatgacaccccattacttttttgctttgcctgttgttga-----gttcatgttttgtcttctcttctttccggtttcaaaataaagCATTCGAAGGTTGAAGGGGCTTATTGCTTGGGTGTGTTTCAGAATGGAAAAGATCCGACAACACTATTAGGGG---------------------------
||| ||||||||   |||| | |  | ||   || | ||  || | |     | || |||  |||| |||||| ||        ||||||| |||  | |||| | | |  ||   || | ||||| || |||||||| ||||||||||| |||||||| || || ||||| |||||||| |||||||||||||| |                           
gtaggagaaattatgagctcatatgtatttaaatcacttgagataac-----atttgtttaatttgtctgttggtgctgtctactcatgttatgtactgtcttttcttcaattctgaa-tgaagCACTCCAAGGTTGATGGGGCTTATTGTTTGGGTGTATTCCAAAATGGTAAAGATCCAACAACACTATTAGGAGGTTAGACACGTCTTACTGCTGCCATTT
















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|33801360|gb|CF326551.1|CF326551
EST:     TTGGAAATGGGCAGAAGCTTTCGCTTTCACCTGAAAACTATTTGTTCCGG                         CATTCGAAGGTTGAAGGGGCTTATTGCTTGGGTGTGTTTCAGAATGGAAAA
genomic: TTGGAAATGGGCAGAAGCTTTCGCTTTCACCTGAAAACTATTTGTTCCGGgtatgagaaa ... caaaataaagCATTCGAAGGTTGAAGGGGCTTATTGCTTGGGTGTGTTTCAGAATGGAAAA
EST: gi|86596688|gb|CI286601.1|CI286601
EST:     TTGGAAATGGGCAGAAGCTTTCGCTTTCACCTGAAAACTATTTGTTCCGG                         CATTCGAAGGTTGAAGGGGCTTATTGCTTGGGTGTGTTTCAGAATGGAAAA
genomic: TTGGAAATGGGCAGAAGCTTTCGCTTTCACCTGAAAACTATTTGTTCCGGgtatgagaaa ... caaaataaagCATTCGAAGGTTGAAGGGGCTTATTGCTTGGGTGTGTTTCAGAATGGAAAA
EST: gi|58611100|gb|CK038812.1|CK038812
EST:     TTGGAAATGGGCAGAAGCTTTCGCTTTCACCTGAAAACTATTTGTTCCGG                         CATTCGAAGGTTGAAGGGGCTT
genomic: TTGGAAATGGGCAGAAGCTTTCGCTTTCACCTGAAAACTATTTGTTCCGGgtatgagaaa ... caaaataaagCATTCGAAGGTTGAAGGGGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcctgttgttgagttcatgttttgtcttctcttctttccggtttcaaaataaagCATTCGAAGGTTGAAGGGGCTTATTGCTTGGGTGTGTTTCAGAATGGAAAAGATCCGACAACACTATTAGGGG
                  tgttttgtcttctctt  CT-rich tract
                                          tttcaaaataaa  TA-rich tract