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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCCAAAAACTTTTAATTTTAGCCTATCTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgtgtactcttttctccttttgctctttgtttggttcaatgttatttatgtataggctgtatttcag

Basic information

species Oryza sativa
transcript LOC_Os01g60040.2
intron # 43
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 43
lower sequence: GRMZM2G009849_T02 (Zea mays), 5'ss of exon 26
GTTCCAAAAACTTTTAATTTTAGCCTATCTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgtgtactcttttctccttttgctctttgtttggttcaatgttatttatgtataggctg----tatttcag---
||||||||||| || ||||||||| ||||||||||||| ||||| |||||||||||||| ||||| || ||||||||||||||    |||  |  |||  || ||| || ||| | |||    || || ||||| |  |  ||     |||||      
GTTCCAAAAACCTTCAATTTTAGCTTATCTGGGGCTTCTTCAAGGTCTTGCAAATATGTCTTAAACACACTCATGCAGgtttgac-atgtttttgtttggccctttacttttt-tatggca-gattttgtttatctgaaatcttgggctattttgacag

upper sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 43
lower sequence: GRMZM2G068755_T01 (Zea mays), 5'ss of exon 44
GTTCCAAAAACTTTTAATTTTAGCCTATCTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgtgtactcttttctccttttgctctttgtttggttcaatgttatttatgtataggctg----tatttcag---
||||| ||||| || ||||||||| ||||||| ||||| ||||| |||||||||||||| ||||| || ||||||||||||||    |||     ||   || ||  |  ||| | |||    || || ||||| |  |  ||     |||||      
GTTCCGAAAACCTTCAATTTTAGCTTATCTGGTGCTTCTTCAAGGTCTTGCAAATATGTGTTAAACACACTCATGCAGgtttgac-atgtttgtattctacccttcacattttttatggaa-gattttgtttatctgaaatcttgggctattttgacag
















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|58612256|gb|CK039968.1|CK039968
EST:     CTGGGGCTTCGTCAAGATCTTGCAAATATGTATTAAATACTCTCATGCAG                         ACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
genomic: CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgt ... tgtatttcagACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
EST: gi|33679052|gb|CF307291.1|CF307291
EST:     CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAG                         ACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
genomic: CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgt ... tgtatttcagACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
EST: gi|300216015|gb|HO088641.1|HO088641
EST:     CTGGGGCTTCGTCAAGATCTTGCAAATATGTATTAAATACTCTCATGCAG                         ACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
genomic: CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgt ... tgtatttcagACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
EST: gi|58673525|gb|CK062211.1|CK062211
EST:     CTGGGGCTTCGTCAAGATCTTGCAAATATGTATTAAATACTCTCATGCAG                         ACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
genomic: CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgt ... tgtatttcagACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
EST: gi|163921634|gb|EG714160.1|EG714160
EST:     CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAG                         ACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
genomic: CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgt ... tgtatttcagACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
EST: gi|58587630|gb|CF985938.1|CF985938
EST:     CTGGGGCTTCGTCAAGATCTTGCAAATATGTATTAAATACTCTCATGCAG                         ACTTTCGGGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
genomic: CTGGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgt ... tgtatttcagACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT
EST: gi|58673773|gb|CK062459.1|CK062459
EST:     GGGGCTTCGTCAAGATCTTGCAAATATGTATTAAATACTCTCATGCAG                         ACTTTCCAGATCAAACGTC-TGCTCATGCTGTGAAGGAGGGTACTCTAGAT
genomic: GGGGCTTCGTCAAGATCTTGCAAATATGTTTTAAATACTCTCATGCAGgtttgtttgt ... tgtatttcagACTTTCCAGATCAAACGTCTTGCTCATGCTGTGAAGGAGGGTACTCTAGAT