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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAAGCAGTTGGCTGAAAAGGCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAGgcatgtgatattttacccttttgtcattgcttttgggaaatcctgtactgctgttgatatttgaatgttttgacattgcttctgcag

Basic information

species Oryza sativa
transcript LOC_Os06g30460.3
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g30460.4 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G082664_T01 (Zea mays), 5'ss of exon 16
GTTAAGCAGTTGGCTGAAAAGGCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAGgcatgtgatattttacccttttgtcattgcttttgggaaatcctgtactgctgttga-------tatttgaatgttttgaca--ttg--cttctgcag
||||||||| |||||||||||||| | |||||||||||||| ||||| |||||||| || || ||||||||||| |  |  || | ||  |||  ||||| | ||  |  |     | ||    ||||       ||||| ||  |||| |    |||  ||| |||||
GTTAAGCAGCTGGCTGAAAAGGCAAGAGCTGGGAAGCTTGCACCTAACGAATTTCAAGGGGGAACTTTCAGgcaagcaac-ttgtgcctgtttaccattgttcttcagggagttctttctatcattgaaattctatattttaacattttaatgatttgttcttatgcag

upper sequence: LOC_Os06g30460.4 (Oryza sativa), 5'ss of exon 14
lower sequence: Vv13s0074g00150.t01 (Vitis vinifera), 5'ss of exon 19
GTTAAGCAGTTGGCTGAAAAGGCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAGgca----tgtgatattttacccttttgtcattgcttttgggaaatcctgt-----actgctgttgatatttgaatgttttgacattgcttctgcag
|| ||  | || |||||||||||||| || |||||||||   || ||||||||||| ||||| |||||||||      |||  |||  | ||  | ||  | |  |  | |    |  |||      | ||  |    ||||   | ||||   ||  ||| | |||
GTCAAAGAATTAGCTGAAAAGGCACGAGCAGGGAAGCTTAAGCCCAATGAATTTCAAGGAGGAACTTTCAGgtgaatgtgtcttataattccagtatgatactattacttgtgtcttttgttaaaagcagccatcataattttttttttttttaat--cttatacag
















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|58692196|gb|CK080883.1|CK080883
EST:     GCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAG                         CATCTCAAATTTGGGAATGTACCCAGTCGACCACTTCTGTGCAATCATCAA
genomic: GCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAGgcatgtgata ... gcttctgcagCATCTCAAATTTGGGAATGTACCCAGTCGACCACTTCTGTGCAATCATCAA
EST: gi|88849307|gb|CI087829.1|CI087829
EST:     GCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAG                         CATCTCAAATTTGGGAATGTACCCAGTCGACCACTTCTGTGCAATCATCAA
genomic: GCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAGgcatgtgata ... gcttctgcagCATCTCAAATTTGGGAATGTACCCAGTCGACCACTTCTGTGCAATCATCAA
EST: gi|218482631|gb|FG947596.1|FG947596
EST:     GCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAG                         CATCTCAAATTTGGGAATGTACCCAGTCGACCACTTCTGTGCAATCATCAA
genomic: GCACGTGCTGGGAAGCTTGCTCCTAATGAATTTCAGGGAGGGACTTTCAGgcatgtgata ... gcttctgcagCATCTCAAATTTGGGAATGTACCCAGTCGACCACTTCTGTGCAATCATCAA