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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagcttccccatagttttgtggcatgtagctattctcagaatcattctgctctgatcattgccttctcagtcttgttcgctttgttgccaaatttccagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCAT

Basic information

species Oryza sativa
transcript LOC_Os01g70300.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g70300.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G700866_T01 (Zea mays), 3'ss of exon 10
---ttagcttccccatagttttgtggcatgtagctattctcagaatcattctgctctgatcattgccttctcagtcttgttcgctttgttgccaaatttccagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCAT
   ||   || |   |   ||  | |    |  ||   |     |  |      | | ||  | | | |||  |  |        |||||  |||  || |||||||||||||||||||||||||||||||||||||| ||| | || | |||||||||||||||||| ||||| ||||| || ||||| ||   || ||| |
atttttttttgcaagtgacttgatagtccatgcctgaacatttcacgagaacttttttattgtagtcctctgtgcttcaca---attgttaacaatctttcagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATAGCAATCGTTCGTCTACTTCAGCAGAGGGCGATAATTTCACTTATCGGAAATGTGGAGCAATCGT

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G300862_T05 (Zea mays), 3'ss of exon 9
ttagcttccccatagttttgtggcatgtagctattctcagaatcattctgctctgatcattgccttctcagtcttgttcgctt------tgttgccaaatttccagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCAT
        |   |||      |  || |   | || |   ||      |   |    | |   | | | |||  | |  ||||      ||||  |||  || |||||||||||||||||||||||||||||||||||||| ||| |||| | |||||||||||||||||| ||||| ||||| || ||||| ||   || ||| |
------agcaagtagaaacacgagatatttttttttttgcaagtgacttatcccatgcctgaacattttagttctctgtgcttcacaattgttaacaatctttcagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATAGCAATTGTTCGTCTACTTCAGCAGAGGGCGATAATTTCACTTATCGGAAATGTGGAGCAATCGT

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G169046_T01 (Zea mays), 3'ss of exon 3
------ttagcttccccatagttttgtggcatgtagctattctcagaatcattctgctctgatcattgccttctcagtcttgttcgctttgttgccaaatttccagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCAT
      ||   || |   |   ||  | |    |  ||   |     |  |      | | ||  | |   |||  |  |        |||||  |||  ||||| ||||||||||||||||||||||||||||||||||| ||| | || | |||||||||||||||||| ||||| ||||| || ||||| ||   || ||   
agagattttttttgcaagtgacttgatagtccatgcctgaacatttcacgagaacttttttattttagttatctatgcttcaca---attgttaacaatcttcCACGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATAGCAATCGTTCGTCTACTTCAGCAGAGGGCGATAATTTCACTTATCGGAAATGTGGAGCAAT---

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|55437242|gb|CV731820.1|CV731820
EST:     CTGTGTCGCTTGATCCATCAAAGATCTGGAGCAGGGAACTTATTCAACAG                         GAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTA
genomic: CTGTGTCGCTTGATCCATCAAAGATCTGGAGCAGGGAACTTATTCAACAGgcaagtgcac ... aaatttccagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgctctgatcattgccttctcagtcttgttcgctttgttgccaaatttccagGAACTTGACCATGTAGTTGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCAT
     ctctgat  putative branch site (score: 4)
                                                tttcc  putative PPT
                                             aaattt  TA-rich tract