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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCGGTTTACACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaacttcttgatattttgatcttgcactcacttgagactctaattgagatcacacttggaactcagttggaaagttttttattttgtaccatgcta...

Basic information

species Oryza sativa
transcript LOC_Os02g17320.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g17320.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 10
GATCGGTTTACACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaacttctt------gatattttgatcttgcactcacttgagactctaattgagatcacactt--ggaactcagttggaaagttttttattttgtaccatgcta
| || ||||||||||| || |||||||||||||| |||||||||||||||||||| || |||||  ||||| |       ||||||||  || |   |    || ||  |||||| ||| | |   ||  || |||||  |    ||      ||    |         
GGTCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTATCTCAGTGATCAGGAGgtaccaacttttcctaaacgatattttcttcatatgcctgttt-aggttctaatcgagttaatgatttaggcactcacataaggagggggaaatgagcttt-------

upper sequence: LOC_Os02g17320.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G034143_T03 (Zea mays), 5'ss of exon 12
GATCGGTTTACACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaacttctt------gatattttgatcttgcactcacttgagactctaattgagatcac-acttgga-actca-gttggaaagttttttattttgtaccatgcta
|||| ||||||||||| || |||||||||||||| ||||||||| |||||||||| || |||||  ||||| |        |||| ||  |  |   ||   || ||  |||||  ||| | |  |||| |  |||||     | | |        | ||||        
GATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAGgtaccaacttttcctaaacaatatattctttgtatgcttgttt-aggttctaaccgagttaatgacttaggcactcacaaaaggaggaaaaaggctatgta--------
















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|86902718|gb|CI306521.1|CI306521
EST:     ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAG                         TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTG
genomic: ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaactt ... ttctctccagTGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTG
EST: gi|3760815|gb|C98069.1|C98069
EST:     CTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAAG                         TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAA
genomic: CTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAG-AAGgtagtaactt ... ttctctccagTGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAA
EST: gi|87029276|gb|CI276544.1|CI276544
EST:     TCTCAGTGATTAGAAG                         TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAAT
genomic: TCTCAGTGATTAGAAGgtagtaactt ... ttctctccagTGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAAT
EST: gi|12623049|gb|AU173262.1|AU173262
EST:     ACTGGGGTAGAGTTCTCCAAAAGATTGGGTGGTATCTCAGTGATTAGAAG                         TGGGGAGAGTTTGGANAATGCATTGNGGGCATGCTG
genomic: ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaactt ... ttctctccagTGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTG
EST: gi|29675373|gb|CB671648.1|CB671648
EST:     ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAG                         TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAAT
genomic: ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaactt ... ttctctccagTGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAAT
EST: gi|29627016|gb|CB632027.1|CB632027
EST:     ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAG                         TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAAT
genomic: ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaactt ... ttctctccagTGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAAT
EST: gi|66922909|gb|CX109757.1|CX109757
EST:     ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAG                         TGGTGAGAGTATGGAGAACGCATTGCGGGCATGCTGCAAAGGTATAAAAAT
genomic: ACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAGgtagtaactt ... ttctctccagTGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAAT