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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACATGTAACAGGGAAAGATGCTCTTGGTAAGCCTGGAAAGATAGCATCTTATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcaggcattgttttgctggtggcttccagctttctgttgtccattgctaagctgagactcttgtactcaactttcag

Basic information

species Oryza sativa
transcript LOC_Os03g46740.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g46740.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM5G868168_T02 (Zea mays), 5'ss of exon 8
TACATGTAACAGGGAAAGATGCTCTTGGTAAGCCTGGAAAGATAGCATCTTATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcaggcattgttttgctggtggcttccagctttctgttgtccattgctaagctgagactcttgtactcaactttcag
| ||| | || ||    ||||| ||||| ||||| ||||| ||||| || ||||| ||||| || ||||||||||||||||||| | |||| ||||| |||||  |  |   | || |   ||  |  || |  |   || |||||| ||||||  | ||  | |||  || |    ||||||
TGCATATGACTGGACGGGATGCCCTTGGCAAGCCAGGAAAAATAGCTTCCTATGTTGTTGTGACCCATCAGCATAGCACAATAAGAAGAGCTGTTGATAGgta--aagaacaaatgctacacttttcactccatgacctcagttgtctattgctgggttggta-tctgatatttgcttttcag

upper sequence: LOC_Os03g46740.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv04s0023g00290.t01 (Vitis vinifera), 5'ss of exon 8
TACATGTAACAGGGAAAGATGCTCTTGGTAAGCCTGGAAAGATAGCATCTTATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcaggcat--------tgttttgctggtggcttccagctttct----gttgtccattgctaagctgagac---tcttgtactcaactttcag-------------
| ||| ||| || | ||||||| | ||| |||| ||| ||||| ||||| ||||| |||||||||||||| ||||| || || | | |||||||||||||||| |       |         ||  || |||   |      ||||| |      | |   | |||  | |  |||   || |  |||  | |  ||              
TCCATTTAAAAGAGGAAGATGCACCTGGGAAGCTTGGGAAGATTGCATCATATGTAGTTGTCACTCATCAACATAGTACCATTAGAAGAGCCGTTGACAGgtagtgcttcatacaaatgagatgcatttctgaaagtacaaggctttgtcaggaatttatgtggctttgttctgacatatcctaaact-gattgccattgttattatatag
















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|38476994|gb|CF961127.1|CF961127
EST:     TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAG                         GTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
genomic: TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcag ... caactttcagGTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
EST: gi|27921057|gb|CB096865.1|CB096865
EST:     TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAG                         GTTGTTATTCCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
genomic: TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcag ... caactttcagGTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
EST: gi|58691671|gb|CK080358.1|CK080358
EST:     TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAG                         GTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
genomic: TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcag ... caactttcagGTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
EST: gi|88508239|gb|CI435745.1|CI435745
EST:     TCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAG                         GTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
genomic: TCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcag ... caactttcagGTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
EST: gi|58593744|gb|CF992052.1|CF992052
EST:     TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAG                         GTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGCACACAAG
genomic: TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcag ... caactttcagGTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATG-ACACAAG
EST: gi|27547660|gb|CA767399.2|CA767399
EST:     TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAG                         GTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA
genomic: TATGTGGTTGTCACTCATCAGCATAGCACAATAAAACGAGCCGTTGACAGgtaatagcag ... caactttcagGTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGA