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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCACTTTCACTGTGTCAAACTTGGGAGGCCCTTTTGGAATTAAGCAATTCTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgctgcctaacaatcacgccatcaggatctgcttatctatcatgtctaatggtctatgctcgcttgaagccattttgttatgatgtttacttaccacgtctagaaatttgttgtgtgcacag

Basic information

species Oryza sativa
transcript LOC_Os06g01630.6
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g01630.5 (Oryza sativa), 5'ss of exon 18
lower sequence: AT1G54220.2 (Arabidopsis thaliana), 5'ss of exon 17
GGCACTTTCACTGTGTCAAACTTGGGAGGCCCTTTTGGAATTAAGCAATTCTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgctgcctaacaatcacgccatcaggatctgcttatctatcatgtctaatggtctatgctcgcttgaagccattttgttatgatgtttacttaccacgtctagaaatttgttgtgtgcacag
|| || || ||||| || ||||||||||| |||||||| || ||||||||||||||  |||| ||||| || ||| | || ||| | ||  |||| || ||||   ||||  ||  ||||   ||      ||  |  ||  |||   |  | ||    | ||   || ||   |   | |     ||||  |||   |  |     | |                  
GGAACATTTACTGTCTCTAACTTGGGAGGACCTTTTGGCATCAAGCAATTCTGTGCAGTCGTTAATCCACCTCAAGCCGCCATTCTAGCAGTTGGATCCGgta---tgctctctctcaat---gcagaagagagtttttttactactttaccaaagatccaataaccgattcgtgttgtgtc----tgattcttaaaaaaaaaaaaaacag-----------------

upper sequence: LOC_Os06g01630.5 (Oryza sativa), 5'ss of exon 18
lower sequence: Vv09s0002g01800.t01 (Vitis vinifera), 5'ss of exon 18
GGCACTTTCACTGTGTCAAACTTGGGAGGCCCTTTTGGAATTAAGCAATTCTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacat---gctgcctaacaatcacgccatcaggatctgcttatctatcatgtctaatggtctatgctcgcttgaagccattttgttatgatgtttacttaccacgtctagaaatttgttgtgtgcacag
|| || || |||||||| ||  ||||||| || ||||| || |||||||||||||||||| | |||||||| || ||||  ||| | || ||||| || ||||| ||   |  || ||| | | | ||| |     | ||   ||  |||||   | ||  ||      | | |  |   | | |||| |  ||                                     
GGGACATTTACTGTGTCTAATCTGGGAGGACCCTTTGGTATCAAGCAATTCTGTGCCATCATCAATCCTCCTCAGTCAGGCATTCTAGCCATTGGGTCTGgtaagataaagacgcttaatattaatgccct-----tttgtacattcatcat-catcatcatccccatcctcattgatgaactctgttcttttgcag----------------------------------
















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|25803971|gb|CA759932.1|CA759932
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|88256589|gb|CI358977.1|CI358977
EST:     TATTGGCTCAG                         CTGAGAAGA-GGTGATCCCT-GAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: TATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|88978612|gb|CI384953.1|CI384953
EST:     TCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: TCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|38477221|gb|CF961354.1|CF961354
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|58585940|gb|CF984248.1|CF984248
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|24468761|gb|CA305710.1|CA305710
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|88247217|gb|CI247066.1|CI247066
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|86871900|gb|CI332072.1|CI332072
EST:     CTTTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|89193198|gb|CI050496.1|CI050496
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|86863330|gb|CI344978.1|CI344978
EST:     CTGTGCCATCGTAAATCCTCCACAGTCAGCAATTTTGGCTATTGGATCAA                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCAG
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTC-G
EST: gi|88222196|gb|CI222152.1|CI222152
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|87030828|gb|CI362042.1|CI362042
EST:     ATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: ATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|88257576|gb|CI360162.1|CI360162
EST:     TCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: TCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|86839043|gb|CI330409.1|CI330409
EST:     CCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|88222052|gb|CI222008.1|CI222008
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|86862659|gb|CI345654.1|CI345654
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGGCTGAGGGTCAGTTTGAAGTTGGTTCG
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGA-GCTGAGGGTCAGTTTGAAGTTGGTTCG
EST: gi|89198662|gb|CI016747.1|CI016747
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|86825407|gb|CI360045.1|CI360045
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
EST: gi|86835039|gb|CI346519.1|CI346519
EST:     CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTTAG                         CTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT
genomic: CTGTGCCATCGTAAATCCTCCACAATCAGCAATTTTGGCTATTGGCTCAGgtaacatgct ... gtgtgcacagCTGAGAAGAGGGTGATCCCTGGAGCTGAGGGTCAGTTTGAAGTTGGTTCGT