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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACTGCTGTAGTCAATGGGGCCATGATTTTCGCCCAGACTACAAGAATCTTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcgaaaataatatccattttttacaataattaaattttaactgtaatgtgaaataaggcctgcttctttttttgcag

Basic information

species Oryza sativa
transcript LOC_Os11g48090.4
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G451856_T02 (Zea mays), 5'ss of exon 6
ACACTGCTGTAGTCAATGGGGCCATGATTTTCGCCCAGACTACAAGAATCTTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcgaaaataatatc------cattttttacaataattaaattttaactgtaatgtga-aataaggcctgcttctttttttgcag
 ||||||||||| |||||||| ||||||||||| || ||||||||||||||||||||||| ||  | || |||||||||||||| ||||||||||||||||| |||   | ||| ||  ||      ||||   |   | || |||||| |   || | |     | |   ||||   |  | ||||||||
TCACTGCTGTAGCCAATGGGGTCATGATTTTCGTCCTGACTACAAGAATCTTGGCATTTTGAAAATTCAATTTCCCAGTGTTCCAATGATAGCTTTAACTgtaagtaaagtaaaaaagttcaaataacattcaattttagaagtaaattgtgcgtgaactccagcagttgagccta--taatattttgcag

upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA09G34860.1 (Glycine max), 5'ss of exon 5
ACACTGCTGTAGTCAATGGGGCCATGATTTTCGCCCAGACTACAAGAATCTTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcgaaaataa-tatccattttttacaataattaaattt--taactgtaatgtgaaataaggcctgcttctttttttgcag--------------------
||| ||||||||||||||||| ||||| ||||| || ||||||||||  ||  | ||| | |||   ||||| ||  ||||||||||  | ||||| |||||  ||    |    || | ||  ||   ||    || |||| ||  ||  | | || ||   |     ||   | ||  |||  |                     
ACATTGCTGTAGTCAATGGGGTCATGACTTTCGACCTGACTACAAGAGCCTCAGTATTCTCAAGACACAGTTCCCTCGTGTTCCTATTGTTGCTTTGACTgtacgtctttatctcaagtttctgttaagtattgcaaataaaattattagatttgatatgcttttcatacttaattttgatttctattaatgacatttatttttcag

upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G31360.1 (Arabidopsis thaliana), 5'ss of exon 5
ACACTGCTGTAGTCAATGGGGCCATGATTTTCGCCCAGACTACAAGAATCTTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcgaaaataatatccattttttacaataa-ttaaattttaactgtaatgtgaaataaggcctgcttctttttttgcag---------------
 || || |||||||| ||||| |||||||||||||| || ||||||||  |  ||||| | ||   |||||||||||  ||||| ||| | |||||||||||  |||       | || |      |   |  | |  | || ||  || | | |  | |    |     | |   | |    |                
TCATTGTTGTAGTCAGTGGGGTCATGATTTTCGCCCTGATTACAAGAACTTAAGCATTCTGAAAACCCAGTTTCCCAAAGTTCCCATGGTGGCTTTAACTgtatgtttttgttttcatttatgggataccctgtgagcttaaattagacagcactagggagcttgcttcaccttactgtgcttatcataaggaccaattt

upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv02s0087g00070.t01 (Vitis vinifera), 5'ss of exon 5
ACACTGCTGTAGTCAATGGGGCCATGATTTTCGCCCAGACTACAAGAATCTTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcgaaaataatatccattttttacaataattaaatttt-------------aactgtaatg-tgaaataaggcctgcttctttttttgcag-------
||| ||||||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||||   ||||||||   ||||||  |  | ||||| |||||  ||   |  | || | | |  |||||    |  || | | ||             |||| | |||   |  ||| |  |  | | |||| ||||        
ACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTTTGACTgtatgtcatgtta-tatttttctctttttcttctttttcactctttgtcatgctctacaactttgatgactagttaaagattcttacattttatgcatttcccag

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|29673292|gb|CB669567.1|CB669567
EST:     TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACT                         GCAACTGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATC
genomic: TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcg ... ttttttgcagGCAACTGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATC
EST: gi|58661067|gb|CK049747.1|CK049747
EST:     TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACT                         GCAACTGCGACAAGTAAAGTGCAAATTGATTTGATAGAG
genomic: TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcg ... ttttttgcagGCAACTGCGACAAATAAAGTGCAAATTGATTTGATAGAG
EST: gi|58690628|gb|CK079315.1|CK079315
EST:     TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACT                         GCAACTGCGACAAGTAAAGTGCAAAT-GATTTGATAGAGATGCTTCATATC
genomic: TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcg ... ttttttgcagGCAACTGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATC
EST: gi|29682976|gb|CB679251.1|CB679251
EST:     TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACT                         GCAACTGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATC
genomic: TTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTTTAACTgtgagttgcg ... ttttttgcagGCAACTGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATC