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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtttgcctgcttcagttaaagactgggaccttgtttgttttcttttgtctgcttatctttgcaactgcacgtaagatacccccatcatccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCA

Basic information

species Oryza sativa
transcript LOC_Os02g07760.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G128114_T01 (Zea mays), 3'ss of exon 15
----ttgtttgcctgcttcagttaaagactgggaccttgtttgttttcttttgtctgcttatctttgcaactgcacgtaagatacccccatcatccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCA
     |  | || | ||||| || |   ||   || | |||| |  | |||||| ||| | |||||| || |||| || |  ||||| | | |||  |||| ||||||||||  ||||||| ||||||||||| |||||||| ||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||
tctggttctcgcttacttca-ttgagaccttaaacatggtttttggtgttttgt-tgcctctctttgtaa-tgcatgtgaagtaccctc-taatctatttgtagGGAGCAAATGTCATGCTAGGTGGTAAAAGACACAGCCTGGGGATGTCATTTTATGAGCCAACTGTAGTAGGGAATGTCAGCAATGATATGCTTCTTTTCA

upper sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G119482_T01 (Zea mays), 3'ss of exon 15
-ttgtttgcctgcttcagttaaagactgggaccttgtttgttttcttttgtctgcttatctttgcaactgcacgtaagatacccccatca-tccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCA
  |  |||| ||||||| || |   |||  || |  ||| ||    |||   ||| | |||||| || |||| || |  ||||| |  || || ||||| ||||||||||  ||||||| ||||||||||| |||||||| || |||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||
ggttcttgcttgcttca-ttgagagctgaaacatgtttttttggtgttttgttgcctctctttg-aaatgcatgtgaattaccctccccaatctttttgtagGGAGCAAATGTCATGCTAGGTGGTAAAAGACACAGCCTGGGAATGTCATTTTATGAGCCAACTGTAGTAGGGAATGTCAGCAATGATATGCTTCTTTTCA

upper sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 15
lower sequence: AT1G79440.1 (Arabidopsis thaliana), 3'ss of exon 15
------------------------------------------------------------ttgtttgcctgc-ttcagttaaagactgggaccttgtttgttttcttttgtctgcttatctttgcaactgca-cgtaagatacccccatcatccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCA
                                                            |  | |   ||  |||||  ||| ||        | ||     |  |    |   |  ||| | ||| |  |   | |  ||      || || ||||  |||||||||| |||||  ||||||| ||||||||||| || |||||| | ||||||||||| |||||  |  |  | ||     || | ||| |  | |  |
gtttgtattttaccttatgcatccttgctaatccttgatttctaagcaatgcagttcatatattctatttgtattcagccaaaaacaattcttgtattgccaatactaacacaagtactctgttcaagtaaaatcttatttattggtgtcttctttttaaagGGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTCTATGAGCCTACTGTTATCCGCGATGTTTCGGATAACATGATCATGTCTA

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|218498176|gb|FG949780.1|FG949780
EST:     GTAGAGAAGTTCATAAATGACGCCACTTCAAAG                         GGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTC
genomic: GTAGAGAAGTTCATAAATGACGCCACTTCAAAGgtaatctgaa ... ccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTC
EST: gi|218485663|gb|FG949794.1|FG949794
EST:     GTAGAGAAG-TCATAAATGACGCCACTTCAAAG                         GGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTC
genomic: GTAGAGAAGTTCATAAATGACGCCACTTCAAAGgtaatctgaa ... ccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTC
EST: gi|218482143|gb|FG968613.1|FG968613
EST:     GTAGAGAAGTTCATAAATGACGCCACTTCAAAG                         GGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTC
genomic: GTAGAGAAGTTCATAAATGACGCCACTTCAAAGgtaatctgaa ... ccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTC
EST: gi|66918914|gb|CX105762.1|CX105762
EST:     GTAGAGAAGTTCATAAATGACGCCACTTCAAAG                         GGAGCAAACATCATGCTTGG
genomic: GTAGAGAAGTTCATAAATGACGCCACTTCAAAGgtaatctgaa ... ccttttgcagGGAGCAAACATCATGCTTGG
EST: gi|58694576|gb|CK083263.1|CK083263
EST:     GTAGAGAAGTTCATAAATGACGCCACTTCAAAG                         GGAGCAAACATCATGCTTGGTGG
genomic: GTAGAGAAGTTCATAAATGACGCCACTTCAAAGgtaatctgaa ... ccttttgcagGGAGCAAACATCATGCTTGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtctgcttatctttgcaactgcacgtaagatacccccatcatccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCA
                                   cccccatcatcctttt  CT-rich tract
         ttatcttt  TA-rich tract