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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgctgctacaattcatggtgatcatgagcagtaaattaaaaaaaaaattcatattccccacggcctgtaaatcttcatattttcagGAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAATGCTATAATTAATGCTACCGAGTTGGCCAGCTACGACCAACTCAAACAG

Basic information

species Oryza sativa
transcript LOC_Os01g74640.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g74640.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G165629_T02 (Zea mays), 3'ss of exon 4
gttgctgctacaattcatggtgatcatgagcagtaaattaaaaaaaaaattcatattccccacggcctgtaaatcttcatattttcagGAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAATGCTATAATTAATGCTACCGAGTTGGCCAGCTACGACCAACTCAAACAG
            | |  |    |||||| ||||||| || |  | |   ||  | ||  |   | |||  ||   |||||  || |||||||||||||||||||||||||||||||| ||||||||  | ||||||||||| |||||||| ||| |||||||||||||||| || ||  ||||||||
---------gttactt-taacaatcatgggcagtaagtttacgaga--ctttcttttttcgttgtccttaaatctttcatgcttccagGAAGGTATTGGAGCTTTGTGGACTGGCCTTGGTCCAAATGTCGCACGCAATGCCATAATTAACGCTGCCGAGTTGGCCAGCTATGATCAGTTCAAACAG

upper sequence: LOC_Os01g74640.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G852877_T01 (Zea mays), 3'ss of exon 4
gttgctgctacaattcatggtgatcatgagcagtaaattaaaaaaaaaattcatattccccacggcctgtaaatctt-catattttcagGAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAATGCTATAATTAATGCTACCGAGTTGGCCAGCTACGACCAACTCAAACAG
            | |  |    |||||| ||||||| || | || |  |||  | ||  |   | |||  ||||||| |||  || |||||||||||||||||||||||||||||||| ||||||||  | ||||||||||| |||||||| ||| |||||||||||||||| || ||  ||||||||
---------gttactt-taacaatcatgggcagtaagtttacaagactatttcttttttcattgtccttaaaatctttcatgcttccagGAAGGTATTGGAGCTTTGTGGACTGGCCTTGGTCCAAATGTCGCACGCAATGCCATAATTAACGCTGCCGAGTTGGCCAGCTATGATCAGTTCAAACAG
















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|29663991|gb|CB660266.1|CB660266
EST:     CATAATCAGACAG                         GAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAAT
genomic: CATAATCAGACAGgttgctgcta ... atattttcagGAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAAT
EST: gi|29682716|gb|CB678991.1|CB678991
EST:     TAATCAGACAG                         GAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAAT
genomic: TAATCAGACAGgttgctgcta ... atattttcagGAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAAT
EST: gi|33684429|gb|CF312668.1|CF312668
EST:     AGAGGCACTATTCTGGAGCCCTCAATGCGTATGCTACCATAATCAGACAG                         GAAGGTATTGGAGCTTTGTGGACTGGCNCTCGGTCCAAACATAGCACGCAA
genomic: AGAGGCACTATTCTGGAGCCCTCAATGCGTATGCTACCATAATCAGACAGgttgctgcta ... atattttcagGAAGGTATTGGAGCTTTGTGGACTGGC-CTCGGTCCAAACATAGCACGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaattaaaaaaaaaattcatattccccacggcctgtaaatcttcatattttcagGAAGGTATTGGAGCTTTGTGGACTGGCCTCGGTCCAAACATAGCACGCAATGCTATAATTAATGCTACCGAGTTGGCCAGCTACGACCAACTCAAACAG
                                        tcttcat  CT-rich tract
     taaaaaaaaaattcat  TA-rich tract