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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcgattttggtttagcacaacaaggttgctactgtatggaagtgcataaactgtgatcgaacatcctattgagtttaacttgccactttttggtacagATTTGGCAAGTGGAATACATGCAAACCAGTTTTCAGATGAGGAATCTGAAAAGATATCCACTTTCCTTAAAAGGGCTTATGTAAGGCTGAACTCTTGGTT

Basic information

species Oryza sativa
transcript LOC_Os01g69210.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69210.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G126468_T01 (Zea mays), 3'ss of exon 12
ctgcgattttggtttagcacaacaaggt-tgctactgtatgg-aagtgcataaactgtgatcgaacatcctattgagtttaacttgcca------cttt---ttggtacagATTTGGCAAGTGGAATACATGCAAACCAGTTTTCAGATGAGGAATCTGAAAAGATATCCACTTTCCTTAAAAGGGCTTATGTAAGGCTGAACTCTTGGTT
         |    ||  |     ||   |  |  ||  ||| |||  |  ||| |  | |  |||||   |    || ||| ||| ||      ||||   |||| |||||||| |||||||||||||||||| | |||||||||||||||||| | |||||||| || | ||| ||| ||||||||||| || |||| ||  |||||||
--------ctaacataaaatgcttagaaattttgttgactggcaagcaccaaaagtccg-ttaaacatatga--aggtctaatttgtcatatgccctttgtcttggcacagATTTAGCAAGTGGAATACATGCACAGCAGTTTTCAGATGAGGAAGCGGAAAAGATTTCAAGTTTTCTTGAAAGGGCTTATATACGGCTAAATGCTTGGTT
















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|58654568|gb|CK043248.1|CK043248
EST:     GCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACGGGGTG                         ATTTGGCAAGTGGAATACATGCAAACCAGTTTTCAGATGAGGAATCTGAAA
genomic: GCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTGgtgagacaat ... tttggtacagATTTGGCAAGTGGAATACATGCAAACCAGTTTTCAGATGAGGAATCTGAAA
EST: gi|58672225|gb|CK060911.1|CK060911
EST:     GCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTG                         ATTTGGCAAGTGGAATACATGCAAACCAGTTTTCAGATGAGGAATCTGAAA
genomic: GCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTGgtgagacaat ... tttggtacagATTTGGCAAGTGGAATACATGCAAACCAGTTTTCAGATGAGGAATCTGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcataaactgtgatcgaacatcctattgagtttaacttgccactttttggtacagATTTGGCAAGTGGAATACATGCAAACCAGTTTTCAGATGAGGAATCTGAAAAGATATCCACTTTCCTTAAAAGGGCTTATGTAAGGCTGAACTCTTGGTT
                             gtttaac  putative branch site (score: 3)
                                       ccacttttt  putative PPT
                              tttaactt  TA-rich tract