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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGTCACTGTTTCTCAACCAATAAATGCTGTTGCGTTTGTGATGGATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACAgttcagatttctattcttatcatgtcccattgtatagtttatcagttatagctgcagcatcctaatcacattagtatttttcttgtttcag

Basic information

species Oryza sativa
transcript LOC_Os12g01580.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g01580.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM5G890665_T01 (Zea mays), 5'ss of exon 10
TTTGTCACTGTTTCTCAACCAATAAATGCTGTTGCGTTTGTGATGGATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACAgttcagatttctattcttatcatgtcccattgtatagtt--------tatcagttatagctgcagcatcc-taatcacattagtat--ttttcttgtttcag-------------------------
||||||||  ||||||| ||  | |||||| |||| || |||   |||||||||||||||||||||||||||||||| |  |  ||||| || || |||| ||||  || || ||   |||| |||| |   ||         |||||   ||        ||||  | ||||| | |  |    |||    |   |                          
TTTGTCACCATTTCTCAGCCGGTGAATGCTATTGCATTCGTGGCTGATGGGCTCTACTATGGTGTTTCTGACTTTGCCTATGCTGCATATTCCACGgttctgattcataatcctactctgtcgcattattatgtcaacgatactatcacacattatcatgtcatcaattatcacttcaacacaactttgccatcctaatcgtgtcaaatctttgttgtttcag

upper sequence: LOC_Os12g01580.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G150557_T01 (Zea mays), 5'ss of exon 8
TTTGTCACTGTTTCTCAACCAATAAATGCTGTTGCGTTTGTGATGGATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACAgttcagatttctattcttatcatgtcccattgtatagtttatcagttatagctgcagcatcctaatcacattagtatttttcttgtttcag---------------------------------------
                                             |||||||||||||||||||||||||||||||| |  |  ||||| || || |||| ||||  || |||||   ||||||||| |   || |   |  ||      || |||  | ||   |  |||  |    ||    ||                                        
-------------------------------------------CTGATGGGCTCTACTATGGTGTTTCTGACTTTGCCTATGCTGCATATTCCACGgttctgattcataatcttactctgtcccattattatgtctccaatatactatcaca-cattatcattttagcagttatcactttaacacaactttgtcactaaaataatgttgaatctttgttgtttcag

upper sequence: LOC_Os12g01580.1 (Oryza sativa), 5'ss of exon 10
lower sequence: AT2G38330.1 (Arabidopsis thaliana), 5'ss of exon 11
TTTGTCACTGTTTCTCAACCAATAAATGCTGTTGCGTTTGTGATGGATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACAgttcagatttctattcttatcatgtcccattgtatagtttatcagttatagctgcagcatcctaatcacattagtatttttcttgtttcag
|||||  |||  ||||||||  | |||||| | ||||||||  ||||||||||||| |||||||| |||||||| |  || |  || || ||||  || |   || ||  |      ||    | ||  ||  |   |    |  | ||| |  |   | || |  |      |  | |||   |||
TTTGTGGCTGGATCTCAACCGGTGAATGCTCTAGCGTTTGTTTTGGATGGGCTCTATTATGGTGTCTCTGACTTCGGATTTGCCGCTTATTCTATGgtcccttttccttcttcatcaattggtcgtttgattctcccttttcttcacctggaaaaagttgattatttc-----tcattttggaacag

upper sequence: LOC_Os12g01580.1 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv08s0058g00510.t01 (Vitis vinifera), 5'ss of exon 11
TTTGTCACTGTTTCTCAACCAATAAATGCTGTTGCGTTTGTGATGGATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACAgttcagatttctattcttatcatgtcccattgtatagtttatcagttatagctgcagcatcctaatcacattagtatttttcttgtttcag
|||||  |||  ||||||||||| |||||| |||| ||||| || ||||| ||||||||||| ||||| |||||||  |  |  || ||||| |  || |    |||| |   ||| ||       | || | ||| ||| |  |  |  || | || |  | |  ||  | ||| |   |   |||
TTTGTTGCTGGATCTCAACCAATGAATGCTATTGCATTTGTTATTGATGGACTCTACTATGGGGTTTCAGACTTTGGATATGCTGCCTACTCCATGgtacca--ttctgtgtatatgat-------tata-aatttttcattctt--ccacatcttctttcttaacttgctgtttgtgacgag-cag

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|29639601|gb|CB644610.1|CB644610
EST:     ATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACA                         TTATTTGCGGGAGCTATCTCATCAGCAGTACTGCTTGTGGCCGCTCCTAAG
genomic: ATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACAgttcagattt ... cttgtttcagTTATTTGCGGGAGCTATCTCATCAGCAGTACTGCTTGTGGCCGCTCCTAAG
EST: gi|25806216|gb|CA762177.1|CA762177
EST:     ATGGGCTCTACTATGGTGTTTCTGACTTCGCTTTCGTGGCATACTCTACA                         TTATTTGCGGGAGCTATCTTATCAGCAGTACTGCTTGTGGCCGCTCCTAAG
genomic: ATGGGCTCTACTATGGTGTTTCTGACTTTGCTTTCGTGGCATACTCTACAgttcagattt ... cttgtttcagTTATTTGCGGGAGCTATCTCATCAGCAGTACTGCTTGTGGCCGCTCCTAAG