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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGTGTTTGTGTTCCAATCGATCCAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAGgtgtgtccttagagccaagcattaaaaaaaacaatattctgagatctaatttacctttggaagcatcattatgctaaactgacttgttgaaactgttgaacttaaccag

Basic information

species Oryza sativa
transcript LOC_Os05g29010.2
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g29010.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G439297_T01 (Zea mays), 5'ss of exon 2
GCCGTGTTTGTGTTCCAATCGATCCAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAGgtgtg-tccttagagccaagcattaaaaaaaacaatattctgagatctaatttacctttggaagcatcattatgctaaactgacttgttgaaactgttgaacttaaccag
|||||||||||||||| || || || | |||||||||||||||||||||| || | ||||| ||||| |||||||| || ||| ||||||| ||||| | ||  |  || |||     || |  ||  ||     |||||||||  ||| |  ||||  || | ||||   || ||| |  |||
GCCGTGTTTGTGTTCCGATTGACCCCAGTAACTGTGATGATTTTGATCCTGCGGCTGTTCCGACTCTATCACAGgtatggtccatagagcctagcatgagaagcactaacatttc---atatccttctccc----aagcatcatggtgcaatgctgatatgctaaaacaagtgcactcatacag

upper sequence: LOC_Os05g29010.2 (Oryza sativa), 5'ss of exon 13
lower sequence: AT5G41880.1 (Arabidopsis thaliana), 5'ss of exon 14
GCCGTGTTTGTGTTCCAATCGATCCAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAGgtgtgtccttagagccaagcattaaaaaaaacaatattctgagatctaatttacct--ttggaagcatcattatgct-aaactgacttgttgaaactgttgaacttaaccag
| ||||| |||||||| || || || |||||||||||||| ||||||||   | ||||||||||||| ||||||||      |||     |   | |   | |  | | | | || ||||| | |||  |  |  ||   ||  || | || || || |  |  |  | ||  | |   |   |||
GTCGTGTCTGTGTTCCTATTGACCCGAATAACTGTGATGAGTTTGATCCATTGGCAGTTCCAACTCTTTCACAGgtaaa---ttaataatagataatgtgatacgctagagtgtg-gatctgaattatttcatcagagagatatttttccttaagctta--tacttcatcttctaatgattttcag
















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|3759043|gb|C96742.1|C96742
EST:     ACTCTGTCACAG                         CCTTTGGGNTGAGCTCAATGCAGCCTGGTCCTCCGTACTGATNCTGAAAAC
genomic: ACTCTGTCACAGgtgtgtcctt ... acttaaccagCTTTTGGG-TGAGCTCAATGCAG-CTGGT-CTTCGTACTGATTCTGAAAAC
EST: gi|10930605|gb|AU160879.1|AU160879
EST:     CAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAG                         CTTTTGGGTGAGCTCAATGCAGCTGGTCTTCGTACTGATTCTGAAAACG
genomic: CAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAGgtgtgtcctt ... acttaaccagCTTTTGGGTGAGCTCAATGCAGCTGGTCTTCGTACTGATTCTGAAAACG
EST: gi|33796820|gb|CF324277.1|CF324277
EST:     CAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAG                         CTTTTGGGTGAGCTCAATGCAGCTGGTCTTCGTACTGATTCTGAAAACG
genomic: CAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAGgtgtgtcctt ... acttaaccagCTTTTGGGTGAGCTCAATGCAGCTGGTCTTCGTACTGATTCTGAAAACG
EST: gi|33795786|gb|CF323762.1|CF323762
EST:     CAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAG                         CTTTTGGGTGAGCTCAATGCAGCTGGTCTTCGTACTGATTCTGAAAACG
genomic: CAAATAACTGTGATGATTTTGATCCTACGACAGTTCCAACTCTGTCACAGgtgtgtcctt ... acttaaccagCTTTTGGGTGAGCTCAATGCAGCTGGTCTTCGTACTGATTCTGAAAACG