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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATGTGTATGAGGCAATCGATGCTCTTCCTGTAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttgtagcatatatcactcatctgaaataaatacatattctgttgccacttatttgaaggtatatttattttggagatggtgcatgtaaaaaag...

Basic information

species Oryza sativa
transcript LOC_Os02g10070.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 9
GTCATGTGTATGAGGCAATCGATGCTCTTCCTGTAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttgtagcatatatcactcatctgaaataaatacatattctgttgccacttatttgaaggta--tatttattttggagatggtgcatgtaaaaaag
 |||||| ||| ||||||| |||||||| || |||||||| ||||| ||||| ||||||||||| ||||| ||||| |||||||| |  | |    | |   | |   || |   ||    ||||   || |||    ||   || ||  |  ||  ||   |    | |   |||   |     
CTCATGTCTATAAGGCAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtccttccactt-cctaagagatttagtatttgaacatcagct-ttgatgttttgctggagtcaaatacctaagatatttaggtcccatcctaggtgt

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G063851_T02 (Zea mays), 5'ss of exon 8
-----------------GTCATGTGTATGAGGCAATCGATGCTCTTCCTGTAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttgtagcatatatcactcatctgaaataaatacatattctgttgccacttatttgaa-ggtatatttattttggagatggtgcatgtaaaaaag-----
                  |||||| ||| || |||| |||||||| || |||  ||| ||||| ||||| ||||||||||||||||| ||||| |||||||| |   ||  |   | | |||  | |||    |||||| | ||    |        | |  ||  | || ||  || ||       ||||  |   | |      
AATTAATATGGTTGCAGCTCATGTCTATAAGACAATAGATGCTCTCCCAGTAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtga---ttaca-tttctgtcatgc-tcttttctaaatata-atatcataattgtgaaataaaatagcattttccttgtgatttatttgcactttttagaattgga

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 9
GTCATGTGTATGAGGCAATCGATGCTCTTCCTGTAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttgtagcatatatcactcatctgaaataaatacatattctgttgccacttatttgaa-ggtatatttattttggagatggtgcatgtaaaaaag-----
 |||||| ||| || |||| |||||||| || |||  ||| ||||| ||||| ||||||||||||||||| ||||| |||||||| |   ||  |   | | |||  | |||    |||||| | ||    |        | |  ||  | || ||  || ||       ||||  |   | |      
CTCATGTCTATAAGACAATAGATGCTCTCCCAGTAGATGCACATCCTATGACACAGTTTACCACAGGAGTAATGGCTCTTCAGgtga---ttaca-tttctgtcatgc-tcttttctaaatata-atatcataattgtgaaataaaatagcattttccttgtgatttatttgcactttttagaattgga

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|58695418|gb|CK084105.1|CK084105
EST:     CCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
genomic: CCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
EST: gi|29614058|gb|CB619071.1|CB619071
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
EST: gi|58693317|gb|CK082004.1|CK082004
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTT-CAAAAAGGCTATGACAAAG
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAG
EST: gi|14571277|gb|BI118645.1|BI118645
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
EST: gi|58599089|gb|CK009617.1|CK009617
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
EST: gi|33794508|gb|CF323141.1|CF323141
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
EST: gi|58678175|gb|CK066862.1|CK066862
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAAG
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAAG
EST: gi|58668188|gb|CK056874.1|CK056874
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
EST: gi|29614020|gb|CB619033.1|CB619033
EST:     TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAG                         GTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
genomic: TAACTGCTCATCCGATGACCCAGTTTACCACAGGAGTGATGGCACTTCAGgtaaaccttg ... ttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA