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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTGAATCAAATAGTCTGCGAACTTCCTTCTGAACATCCCTTGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaaatgccattttcactaatcattttattatactgcaccaatcgaaagcgatgtcatattgattgtgctgattacgtggataccaactgaacc...

Basic information

species Oryza sativa
transcript LOC_Os01g67560.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67560.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G059108_T01 (Zea mays), 5'ss of exon 3
GTGTTGAATCAAATAGTCTGCGAACTTCCTTCTGAACATCCCTTGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaaatgccattttcactaatcattttattatactgcaccaatcgaaagcgatgtcatattgattgtgctgattacgtggataccaactgaacc--
||  |||| |||||||| || ||||||||||||||||||||||||||||||||||||||| |||| ||||| ||||||||||| |||||||||||||| ||||||| | ||||     | ||||||||| |      | ||  |||||||||| | |||||    |  || ||| |||||||||||  |||||  
GTACTGAACCAAATAGTTTGTGAACTTCCTTCTGAACATCCCTTGTCTGAAACAAGACCACTGCGAGAACTTTTAGGCCATACACCAACCCAGgtttgttcaaatgtcctttttgacta-cattttattgttgctggcaaaatgaaagcgatggcttattggc-attttggttatgtggataccaaaagaacctc

upper sequence: LOC_Os01g67560.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G091435_T03 (Zea mays), 5'ss of exon 3
GTGTTGAATCAAATAGTCTGCGAACTTCCTTCTGAACATCCCTTGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaaatgccattttcactaatcatt----ttattatactgcaccaatcgaaagcgatgtcatattgattgtgctgattacgtggataccaactgaacc
|| |||||||||||||| || ||||||||||||||||| ||||||||||| ||||||||| |||| ||||| ||||||||||| ||||| |||||||| ||| ||| | |||| | |  |  ||    | | |  | | ||    | |   || |    | |  ||| | | |  |  | | || ||||| ||||  
GTATTGAATCAAATAGTTTGTGAACTTCCTTCTGAACACCCCTTGTCTGAGACAAGACCACTGCGAGAACTTTTAGGCCATACACCAACTCAGgtttgttcacatgtcctttttattgttttttcaagtgaatgcatttcattg-ttgttggcaaaacgaaagcgatgg-gttattggcatagacaccaagtgaa--
















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|58600636|gb|CK011164.1|CK011164
EST:     TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAG                         GTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
genomic: TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaa ... cttgttccagGTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
EST: gi|88559515|gb|CI490097.1|CI490097
EST:     TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAG                         GTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
genomic: TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaa ... cttgttccagGTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
EST: gi|86836842|gb|CI347435.1|CI347435
EST:     TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAG                         GTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
genomic: TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaa ... cttgttccagGTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
EST: gi|88448886|gb|CI557958.1|CI557958
EST:     TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAG                         GTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
genomic: TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaa ... cttgttccagGTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
EST: gi|88540058|gb|CI470068.1|CI470068
EST:     TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAG                         GTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
genomic: TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaa ... cttgttccagGTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
EST: gi|88508844|gb|CI436350.1|CI436350
EST:     TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAG                         GTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
genomic: TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaa ... cttgttccagGTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
EST: gi|88252935|gb|CI350360.1|CI350360
EST:     TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAG                         GTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG
genomic: TGTCTGAAACAAGACCATTGCGTGAACTCTTAGGCCATACTCCAACCCAGgtttgctcaa ... cttgttccagGTTGTTGCTGGAGCTTTGCTTGGGTCTATGCTAGCAACAGCAGGGCAAATG