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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTCTGCAGGCACTTCAAAAACTGAATCATCCCAACATTGTGAAGTTAAAGGAGGTGACTATGGAAAATCACGAGTTGTTCTTCATTTTTGAAAACATGgttggtctcaagtcattcttggcatacttttttactactttctttatgagcaggaaaaaaaagaggaaaggctaaactattactagcccatatcgctatg...

Basic information

species Oryza sativa
transcript LOC_Os03g63020.4
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g63020.4 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G045241_T07 (Zea mays), 5'ss of exon 1
CCTTCTGCAGGCACTTCAAAAACTGAATCATCCCAACATTGTGAAGTTAAAGGAGGTGACTATGGAAAATCACGAGTTGTTCTTCATTTTTGAAAACATGgttggtctcaagtcattcttggcatacttttttactactttctt-tatgagcaggaaaaaaaagaggaaaggctaaactatta--ctagcccatatcgctatg
  |||||||||| ||||| |||||   ||| || |||||||||||| | ||||| ||||| |||||||| || ||| |||||||||| |||||| ||||||||     |  |  |    | ||||  ||||||||||  || || ||| |     |  || |  |  |||||||||   |  |  |||  || ||  ||    
TTTTCTGCAGGCCCTTCAGAAACTATTTCACCCTAACATTGTGAAGCTGAAGGAAGTGACGATGGAAAACCATGAGCTGTTCTTCATCTTTGAACACATGgtttagtccttgctacatctagcatg-ttttttactatatttttgtataaattaaaggaagagaaaaaaaggctaattcaccatgctattccctaaggcac--

upper sequence: LOC_Os03g63020.4 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G045241_T01 (Zea mays), 5'ss of exon 6
CCTTCTGCAGGCACTTCAAAAACTGAATCATCCCAACATTGTGAAGTTAAAGGAGGTGACTATGGAAAATCACGAGTTGTTCTTCATTTTTGAAAACATGgttggtctcaagtcattcttggcatacttttttactactttctt-tatgagcaggaaaaaaaagaggaaaggctaaactatta--ctagcccatatcgctatg
          || ||||| |||||   ||| || |||||||||||| | ||||| ||||| |||||||| || ||| |||||||||| |||||| ||||||||     |  |  |    | ||||  ||||||||||  || || ||| |     |  || |  |  |||||||||   |  |  |||  || ||  ||    
----------GCCCTTCAGAAACTATTTCACCCTAACATTGTGAAGCTGAAGGAAGTGACGATGGAAAACCATGAGCTGTTCTTCATCTTTGAACACATGgtttagtccttgctacatctagcatg-ttttttactatatttttgtataaattaaaggaagagaaaaaaaggctaattcaccatgctattccctaaggcac--
















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|25798660|gb|CA754621.1|CA754621
EST:     AGGAGGTGACTATGGAAAATCACGAGTTGTTCTTCATTTTTGAAAACATG                         GAATGCAATTTGTATGATGTCATAAGAGAAAGGCAAGCTGCTTTCTCAGAA
genomic: AGGAGGTGACTATGGAAAATCACGAGTTGTTCTTCATTTTTGAAAACATGgttggtctca ... cttttcacagGAATGCAATTTGTATGATGTCATAAGAGAAAGGCAAGCTGCTTTCTCAGAA
EST: gi|58675001|gb|CK063688.1|CK063688
EST:     AGGAGGTGACTATGGAAAATCACGAGTTGTTCTTCATTTTTGAAAACATG                         GAATGCACTTTGTATGATGTCATAAGAGAAAGGCAAGCTGCTTTCTCAGAA
genomic: AGGAGGTGACTATGGAAAATCACGAGTTGTTCTTCATTTTTGAAAACATGgttggtctca ... cttttcacagGAATGCAATTTGTATGATGTCATAAGAGAAAGGCAAGCTGCTTTCTCAGAA
EST: gi|33381171|gb|CF196514.1|CF196514
EST:     TTGTTCTTCATTTTTGAAAACATG                         GAATGCAATTTGTATGATGTCATAAGAGAAAGGCAAGCTGCTTTCTCAGAA
genomic: TTGTTCTTCATTTTTGAAAACATGgttggtctca ... cttttcacagGAATGCAATTTGTATGATGTCATAAGAGAAAGGCAAGCTGCTTTCTCAGAA