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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGATGGCGCAGAGCATGACCTCTCGCCCCATGAAGGGAATGTTGACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcctgttgttgatgatgcaatgctaattattcaggttgcgattgagctttctgttgaggctgacattttcacacttgctcag

Basic information

species Oryza sativa
transcript LOC_Os12g42884.3
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g42884.3 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G149751_T03 (Zea mays), 5'ss of exon 11
CCAAGATGGCGCAGAGCATGACCTCTCGCCCCATGAAGGGAATGTTGACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcctgttgttg--atgatgcaatgctaattattcaggttgcgattgagctttc----tgttgaggctgacatt--ttcacacttgctcag-
| |||| ||| ||||||||||| |||||||| |||||||| ||| ||||||| || ||||||||||| |||||||| || ||| ||||||||||||||||||| ||  ||   |     | | |   ||      |  ||||    |  ||    | |     | |||   ||||| ||  | | | | |  ||   
CGAAGACGGCACAGAGCATGACGTCTCGCCCAATGAAGGGGATGCTGACTGGCCCAGTCACAATCCTCAACTGGTCCTTCGTCCGGAATGACCAGCCGAGgtcagtaactagagcaagaacggtttgatttctggtgctcagagcaccgttttcttcttccgtttttggtactgacgttgctcctcccatcttccag

upper sequence: LOC_Os12g42884.3 (Oryza sativa), 5'ss of exon 11
lower sequence: EFJ05611 (Selaginella moellendorffii), 5'ss of exon 9
CCAAGATGGCGCAGAGCATGACCTCTCGCCCCATGAAGGGAATGTTGACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcctgttgttgatgatgcaatgctaattattcaggttgcgattgagctttctgttgaggctgacattttcacacttgctcag
|        |||||||| | ||     | ||||||||||||||| | || || ||||| |||||  | |||||||| || ||||| ||||||||||||||||  |    |||  ||      |  ||  |   ||    |  |    ||    |  |    |                          
CTTCCTACTCGCAGAGCCTCACTAAGAGGCCCATGAAGGGAATGCTCACGGGACCCGTGACAATTTTGAACTGGTCCTTCGTCAGAAATGACCAGCCGAGgtgagcttttgtctttctcatcgacatctttgctaactggccttacgtttcattcaccacag--------------------------

upper sequence: LOC_Os12g42884.3 (Oryza sativa), 5'ss of exon 11
lower sequence: EFJ28889 (Selaginella moellendorffii), 5'ss of exon 9
CCAAGATGGCGCAGAGCATGACCTCTCGCCCCATGAAGGGAATGTTGACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcctgttgttgatgatgcaatgctaattattcagg-ttgcgattgagctttctgttgaggctgacattttcacacttgctcag
|        |||||||| | ||     | ||||||||||||||| | || || ||||| |||||  | |||||||| || ||||| ||||||||||||||||  |    |||  ||      |  ||  |   ||    |  || || || |    |        |                       
CTTCCTACTCGCAGAGCCTCACTAAGAGGCCCATGAAGGGAATGCTCACGGGACCCGTGACAATTTTGAACTGGTCCTTCGTCAGAAATGACCAGCCGAGgtgagcttttgtctttctcatcgacatctttgctaactggtcttacgtttcattcattcaccacag-----------------------

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|300216253|gb|HO088038.1|HO088038
EST:     GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGT
genomic: GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGT
EST: gi|218478602|gb|FG965538.1|FG965538
EST:     GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
genomic: GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
EST: gi|218486860|gb|FG950334.1|FG950334
EST:     GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
genomic: GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
EST: gi|428194|gb|D24342.1|D24342
EST:     CCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
genomic: CCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
EST: gi|41884047|gb|BX928878.1|BX928878
EST:     GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGGAGGTCGAGG
genomic: GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGG-AGGTCGAGG
EST: gi|396941330|gb|HO188539.1|HO188539
EST:     TGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATC-AGAAAGGAGGTCGAGG
genomic: TGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAG-AAGGAGGTCGAGG
EST: gi|218501245|gb|FG948195.1|FG948195
EST:     GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
genomic: GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGA
EST: gi|58661898|gb|CK050578.1|CK050578
EST:     GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAG                         GTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAG
genomic: GGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGgtccgtgcct ... acttgctcagGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAG