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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAATCTCTTTCTCCTGATGTGCCTCTGTACAAAGTCGTTGAAGGGAATGAACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctattggatatttaccactatatctttttttctcagttctatcaattggaactttgtatttaagagatttcaccttggaagcaatttttcgtata...

Basic information

species Oryza sativa
transcript LOC_Os03g24220.3
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 19
lower sequence: GRMZM2G081322_T01 (Zea mays), 5'ss of exon 20
CGAATCTCTTTCTCCTGATGTGCCTCTGTACAAAGTCGTTGAAGGGAATGAACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctattggatatttaccactatatctttttttctcagttctatcaattgga-actttgtatttaagagatttcaccttggaagcaatttttcgtata
 |||  | ||||||||||||||||||| || ||||||  ||||||||||||||| ||||||||||| || |||||||||||||||| | || |||| |||||||||| ||  ||||||||  || ||| ||      |||| | |      |    |  ||   ||||  || | |     ||| | ||  |  |  | | 
TGAAGGTATTTCTCCTGATGTGCCTCTCTATAAAGTCAATGAAGGGAATGAACCTTGCTTCTTCAGGACATACTTCTCCTGGGATAGCGCACGATCCGTGgtatgctcttatatatttacttctgtattttaaaagttcagcttttcgttctaagtatgttccgtttattaggtatttgtatggta-cagatcatattttg

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 19
lower sequence: GRMZM2G359566_T01 (Zea mays), 5'ss of exon 4
CGAATCTCTTTCTCCTGATGTGCCTCTGTACAAAGTCGTTGAAGGGAATGAACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctattggatatttaccactatatctttttttctcagttcta---tcaattggaactttgtatttaagagatttcaccttggaagcaatttttcgtata
 |||    ||||||||||||||||||| || ||||||  ||||||||||||||| ||||||||||| || | |||||||||||||| |||| | ||  ||||||||| || |||||||||   | ||| || |    |||| | |    | || |     |||||||   |  | |      ||| | |      ||  |   
TGAAGGAATTTCTCCTGATGTGCCTCTCTATAAAGTCAATGAAGGGAATGAACCTTGCTTCTTCAGGACATTCTTCTCCTGGGATAGCACACGGTCCCTGgtatgctcttagatatttacttttgtattttataagttcagcttttcgtttaactatgtatttgtatcggacggctgatgttttgaaggtttaccttttt---

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 19
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 5'ss of exon 19
CGAATCTCTTTCTCCTGATGTGCCTCTGTACAAAGTCGTTGAAGGGAATGAACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctattggatatttaccactatatctttttttctcagttctatcaattggaactttgtatttaagagatttcaccttggaagcaatttttcgtata-------------------------------------------
 |||    |   |||| | || ||  | |||||| ||  ||||||||| ||||||||||||||||  |||||||| || ||||||  ||| | | || | ||| |  | |   | || |  |    || |   |     |  |  || | |  |||  ||  |  | |  |||||| | ||        | |||| | |                                            
GGAAGGCTTGCATCCTAAAGTCCCAATCTACAAAATCAATGAAGGGAACGAACCATGCTTCTTCACCACTTACTTTTCTTGGGATGCCACTAAAGCTATCgtaagtgacttagtgttgaagaggg-atttagataatataactagataactctgaatgtt--acctcatggatttc-ctttactgtttctctttcttttctccttgaatttacctttcttctgttttaaacattgggatatag

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|88694289|gb|CI738327.1|CI738327
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58596217|gb|CK006745.1|CK006745
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|218486625|gb|FG969617.1|FG969617
EST:     CAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: CAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58677092|gb|CK065779.1|CK065779
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|25798468|gb|CA754429.1|CA754429
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGNGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAACTTTCACTTCTTTTCGGGATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|396941448|gb|HO188657.1|HO188657
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|29669712|gb|CB665987.1|CB665987
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|88718464|gb|CI741974.1|CI741974
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGTTCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58661440|gb|CK050120.1|CK050120
EST:     AACCATGCTTCTTCAGAACTTACGGCGCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|33674859|gb|CF303098.1|CF303098
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGNGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58674368|gb|CK063054.1|CK063054
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58673715|gb|CK062401.1|CK062401
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58610643|gb|CK038355.1|CK038355
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|56157785|gb|C26501.2|C26501
EST:     ACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: ACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58672631|gb|CK061317.1|CK061317
EST:     TGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: TGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58612287|gb|CK039999.1|CK039999
EST:     CAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: CAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
EST: gi|58652765|gb|CK041445.1|CK041445
EST:     AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTG                         ATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC
genomic: AACCATGCTTCTTCAGAACTTACTTCTCCTGGGATAACACAAGATCTGTGgtatgctatt ... cttgaaacagATTCATGGAAATTCATTTCAGAAGAAGCTTTCACTTCTTTTCGGAATGCGC