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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTGGAGGTAAATATGAATTCTGGTGCTACTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAGgtttggattactcgtatatcagagataaaaaaaaatgatgcacacattctagatgatttcttattctgcttagatttaag

Basic information

species Oryza sativa
transcript LOC_Os01g56670.4
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G173868_T04 (Zea mays), 5'ss of exon 11
GTATGTGGAGGTAAATATGAATTCTGGTGCTACTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAGgtttggattactcgtatatcagagataaaaaaaaa---tgatgcacacattctagatgatttcttattctgcttagatttaag
||| |||||||| |||||||| ||||||||||||||||||||||| ||||| ||||| ||||||||||||||||| |||||||||||| |||| | ||| || || |    |        ||  ||||| ||||||||||||| ||||| |||||||||||||||
GTACGTGGAGGTTAATATGAACTCTGGTGCTACTGTTTGGCCACTCTTCAATAGTCTGCAGGCATTCTGGCCAGGGCTTCAGgtttgg-ttacacatatttctgataattgatgtggctttgtcgcacatattctagatgattgcttatgctgcttagatttaag

upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G173868_T02 (Zea mays), 5'ss of exon 11
----------------------------GTATGTGGAGGTAAATATGAATTCTGGTGCTACTGTTTGGCCAC---------TATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTC--AGgtttggattactcgtatatcagagataaaaaaaaatgatgcacacattctagatgatttcttattct--gcttagatttaag
                             | |  ||   ||  |    ||  || | || || || |  |||         | |||| | ||||  |   | | |||      |     ||||||  ||   |  || |||     || |   || |||  |    |  ||| |  | |    | | |  || ||   |    
ATTCTAGATGATTGCTTATGCTGCTTAGATTTAAGGTTTTAGCTGGAGATGTTGATCCTGCTATTCGCACACATGCTGCCTTCTTCAGC-GTCTGGAAAAAgtatggttttacccctgaaggttttaatc-ttgctacatccactgtacaggtaa-tgaaactgttaaactataatagtcaagagtattagcataatctccta

upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 11
lower sequence: Vv05s0020g04650.t01 (Vitis vinifera), 5'ss of exon 12
GTATGTGGAGGTAAATATGAATTCTGGTGCTACTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAGgtttggattactcgtatatcagagataaaaaaaaatgatgcacacattctagatgatttcttattctgcttagatttaag
||||||||||||||| ||| |||||| ||||| |||||||||| |||| |||||| | || |||||||||||||| |||||||| |   |||    |   | | | || | |||   ||        |||    |  |    ||||     |   |      
GTATGTGGAGGTAAACATGGATTCTGCTGCTATTGTTTGGCCATTATTTAACAGTTTGCAAGCATTCTGGCCAGGCCTTCAGgtat--tttatctattatttatatattataaattttgcattgtcgattaatcaaaaccgattatcactttggaag-----

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|58654851|gb|CK043531.1|CK043531
EST:     CTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAG                         GTGTTAGCTGGAGATGTTGATCCTGCCATTCGAACTCATGCTGCCTTCTTC
genomic: CTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAGgtttggatta ... tagatttaagGTGTTAGCTGGAGATGTTGATCCTGCCATTCGAACTCATGCTGCCTTCTTC
EST: gi|88361880|gb|CI682051.1|CI682051
EST:     CTGTNTGGCCACTATCCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAG                         GTGTTAGCTGGAGATGTTGATCCTGCCATTCGAACTCATGCTGCCTTCTTC
genomic: CTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAGgtttggatta ... tagatttaagGTGTTAGCTGGAGATGTTGATCCTGCCATTCGAACTCATGCTGCCTTCTTC
EST: gi|88394177|gb|CI684850.1|CI684850
EST:     CTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAG                         GTGTTAGCTGGAGATGTTGATCCTGCCATTCGAACTCATGCTGCCTTCTTC
genomic: CTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAGgtttggatta ... tagatttaagGTGTTAGCTGGAGATGTTGATCCTGCCATTCGAACTCATGCTGCCTTCTTC