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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACATCGGCGTGCCCGGAGGGGAAGTTCTACTGCCAGAATGCTGGGCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTGgtaagaggattataatcggtggccattctctgtatcattcaaatgtaaacacagtaaatgtacacaaaatcaattgtaaggctagagattagggtgcttttgttccgtaaacatagtgcttgagggaattcccgctatatttttttctaattacccatatgtgtttgtcgctgcctcttag

Basic information

species Oryza sativa
transcript LOC_Os01g16970.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g16970.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G052875_T01 (Zea mays), 5'ss of exon 3
GGACATCGGCGTGCCCGGAGGGGAAGTTCTACTGCCAGAATGCTGGGCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTGgtaagaggattataatcggtggcc-------attctctgtatcattcaaatgtaaacacagtaaatgtacacaaaatcaattgtaaggctagagattag--ggtgcttttgttccgtaaa-catagtgcttgagg-gaattcccgctatatttttttctaattacccatatgtgtttgtcgctgcctcttag
||||||| |||||||| |||| ||||||||||||| ||||||| || ||  ||||  ||||||||||||| || ||||||||||| || || |||||||||||||| ||||| | ||||        ||||  ||  |  ||    ||| ||   |  |    |   |||  |  | |  |      || | | |  || ||| |||||  ||  | ||| | ||||  || |||  ||| |||     ||    ||||  |  ||| ||    |   | |||| |||
GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACACTCCAGTCACGATCTTCTCATCACGAGTGAATGACGGCATTTGTGgtaagaggatcataattgttggcattgttagattcattgcttacttgttttgttaaataaagatgcatgtgcaaggtacaatacagactgtgaaagtcgttggagctcttgttttgtgtatcatggcgcttttggtgaaaccccactaggcgatt----aattctctgtatttgcacct---tccctcctag

upper sequence: LOC_Os01g16970.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AC213600.3_FGT002 (Zea mays), 5'ss of exon 3
GGACATCGGCGTGCCCGGAGGGGAAGTTCTACTGCCAGAATGCTGGGCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTGgtaagag--------gattataatcggtggccattctctgt--atcattcaaatgtaaacacagtaaatgtacacaaaatcaattgtaaggctagagattag--ggtgcttttgttccgtaaa-catagtgcttgagg-gaattcccgctatatttttttctaattacccatatgtgtttgtcgctgcctcttag
||||||| || ||||| |||| ||| ||||||||| ||||||| || ||  ||||  |||||||||||||||| ||||||||||| || || |||||||||||        | | ||| |   ||||  |  |  ||  ||  || |  |||      |  |||| | ||       |  |  |      || |||    || ||| ||| | | |  | | |||  |||  |  ||||| ||||||         ||||||  |  ||| ||||  |  |  |||  |||
GGACATCTGCATGCCCTGAGGCGAAATTCTACTGCAAGAATGCAGGCCACACTCCAGTCACGATCTTCTCGTCACGAGTGAATGACGGCATTTGTGgtaagagcctaagagggtcatagttattggcattgttgggttcattgtttacttgttttgttaaaaaatatgcatgtg-caaggtacatactgtgaaattcattggagctcttgattcatgtatcgtagctcttttgctgaatttccgctaggcga----ctaattctcagtatctgttccttcccaccttctag
















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|88963686|gb|CI029464.1|CI029464
EST:     GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTG                         ATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA
genomic: GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTGgtaagaggat ... tgcctcttagATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA
EST: gi|86423164|gb|CI060737.1|CI060737
EST:     GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTG                         ATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA
genomic: GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTGgtaagaggat ... tgcctcttagATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA
EST: gi|88212111|gb|CI211751.1|CI211751
EST:     GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTG                         ATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA
genomic: GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTGgtaagaggat ... tgcctcttagATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA
EST: gi|88903472|gb|CI089010.1|CI089010
EST:     GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTG                         ATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA
genomic: GCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTGgtaagaggat ... tgcctcttagATTGCTGCGACGGGAGTGATGAGTATGATAGCAATGTCACTTGCAAGAATA