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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttcctgcaatgtgattgttggatattatacagcaataccacttcagtgtcaacttactctttccatattttgtgcttaattttaaaatcctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGGCTTAAAGCTTGAACAGTTTATATTTGACGTGTTCACCTATTCTCCATCA

Basic information

species Oryza sativa
transcript LOC_Os08g10600.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g10600.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G155729_T03 (Zea mays), 3'ss of exon 11
-----------------------------------------------------------------cttcctgcaatgtgattgttggatattatacagcaa---taccacttcagtg-----tcaacttactctttccat---attttgtgctta--atttta---aaatcctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGGCTTAAAGCTTGAACAGTTTATATTTGACGTGTTCACCTATTCTCCATCA
                                                                      |  ||||| |||| || || || |   |      |   ||||| ||      | |||| ||  ||   |    | | |  |||||  |||||    |     | ||| |||||||||| |||| |||||||  ||||||||| |||||||||||||  |||| |||||||||||||| ||||||||||| || |||| ||||||||| |||
gtgagtatttttttctttccttattcttgcactttatccattcatgttacatttaaccctttatttaatatataatgtaattgctgcattttttctggagggcctgtaacttctgttgatcttaaactaacaattaataatagaatattggcttacaattttgtccatcgtttatgcacagTTACCATCTAGCCGAGAAGAGAATTCCTTCAGTCCATGGGTACACATCAGGATTAAAGCTTGAACAATTTATATTTGATGTATTCAACTATTCTCCTTCA
















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|163919868|gb|EG711498.1|EG711498
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT                         TTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattg ... ctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT                         TTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattg ... ctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT                         TTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattg ... ctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT                         TTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattg ... ctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
EST: gi|3767528|gb|AU031622.1|AU031622
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT                         TTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattg ... ctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
EST: gi|29685402|gb|CB681677.1|CB681677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT                         TTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattg ... ctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgtcaacttactctttccatattttgtgcttaattttaaaatcctgtgcccagTTACCATTTAGCAGAGAAGAAGATTCCTTCAATCCATGGGTACACGGCAGGCTTAAAGCTTGAACAGTTTATATTTGACGTGTTCACCTATTCTCCATCA
                    atattttgtgcttaat  TA-rich tract