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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatatttacctctcctgcaatggctgtgcctatgaagattcaacatgataatattgttggtggttttgtatgttttcaaaatggtactttataatagc...

Basic information

species Oryza sativa
transcript LOC_Os03g24220.1
intron # 14
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 14
lower sequence: GRMZM2G081322_T01 (Zea mays), 5'ss of exon 14
AAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatatttacctct-cctgcaatggctgtgcctatgaagattcaacatgataatattgttggtggttttgtatgttttcaaaatggtactttataatagc--
 |||||  |||| |||||||| |||| |   ||||||| ||||||  ||| ||||||||||||| |  |||| |||||||||  ||||||||||||||||||| |  |||||||| ||||   |   | |    |     ||||| ||| |    ||| |      ||||   |   |   |||  |||    ||||||    
GAAGGGTCTGAAAGATGAAACGTATTGTTCTGATGGCACTGCTCTCATTCAAATTTCTGGAACAGCGGTTCATAACAATAAAACGCTTCAAGTTGATGCGgtatttcttacctctacctgttgtaaatatattgacttccattca-cataa--gcattctgaaaatttttaagttaatgagaaaaagtagccaataatactta

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA10G21350.2 (Glycine max), 5'ss of exon 13
AAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgta-atatttacctctcctgcaatggctgtgcctatgaagattcaacatgataatattgttggtggttttgtatgttttcaaaatggtact--ttataatagc
 || ||  |    ||||| |||||  | |  ||  | ||||| ||| |||||||||||||||| || ||| |||||||||||    | ||||||||||| |||  || | |            |   | | ||| |  |  |  |   || ||   ||  |  |  |||| ||    || | | |  |  |  |  || ||  
CAAAGGAGTATCAGATGAGACATACACAGCAGAGAGTATTGCACTTATTCGAATTTCTGGAACTTCTATTTACAACAATAAATCAGTACAAGTTGATGCAgtatgtactcatgaaagtattccttatttttcctctacaagt--atgttggtagggtttatattttttttctagcccttaatacttatgttattcttattaag

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA19G32010.1 (Glycine max), 5'ss of exon 14
AAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatatttacctctcctgcaatggctgtgcctatgaagattcaacatgataat-attgttggtggttttgtatgttttcaaaatggtact--ttataatagc---------
 || || |||  |||||| |||||  | |  ||  |  |||| ||| |||| |||||||||||||| ||||| || ||||||||| | ||||| ||||| |||         |  |||  ||  | |   | |||  |  ||   ||   || | ||| |||  ||  |  | | | | | |  ||  |    ||||   |           
TAAAGGTTTGCCGGATGAGACATACGCAGCAGAGAGTGTTGCACTTATTCGGATTTCTGGAACATCCATTCATAATAATAAAGTGGTGCAAGTAGATGCAgta-------tgttccctttaaaagtta-acttattcattttttccaccgtagttatttttgtagggctactttctctactagctgacaacaattatgtcattcttgttcag

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA02G32100.1 (Glycine max), 5'ss of exon 12
AAAGGGCTTGAAGGATGAAACATATTCTGGCGATGGCATTGCTCTTTTTCGAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatatttacctctcctgcaatggctgtgcctatgaagattcaa-catgataatattgttggtggttt---tgtatgttttcaaaat--ggtactttataatagc
 || ||       ||||| |||||  | |  ||  | ||||| ||| |||||||||||||||| || ||||| |||||||||    | ||||||||||| |||   | ||||  |      ||  || |   | |     | |||  ||| |  ||  | |  |  |||   | ||    |||| | |   ||  ||  || |   
CAAAGGTGCATCAGATGAGACATACACAGCAGAGAGTATTGCACTTATTCGAATTTCTGGAACTTCTATTCATAACAATAAATCAGTACAAGTTGATGCAgta---tgtacccatgaaaatattcctttttttttccctctacaagtatgttggtagggcttatattttatttctagcccttcatacttaagttattcttattcag

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|58670584|gb|CK059270.1|CK059270
EST:     GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCG                         GTGTCATCAAACTTGAGTCCCACAGATTGTTTTGTCCTGCAATCTGGAAAT
genomic: GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatattta ... ttttctatagGTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
EST: gi|88692350|gb|CI735925.1|CI735925
EST:     GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCG                         GTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATC
genomic: GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatattta ... ttttctatagGTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATC
EST: gi|88722817|gb|CI746327.1|CI746327
EST:     GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCG                         GTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
genomic: GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatattta ... ttttctatagGTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
EST: gi|12404685|gb|AU166286.1|AU166286
EST:     GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCG                         GTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
genomic: GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatattta ... ttttctatagGTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
EST: gi|426363|gb|D22226.1|D22226
EST:     GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCG                         GTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
genomic: GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatattta ... ttttctatagGTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
EST: gi|88569524|gb|CI660699.1|CI660699
EST:     GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCG                         GTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT
genomic: GAATTTCTGGAACATCAATTCACAACAATAAAGTGCTTCAAGTTGATGCGgtaatattta ... ttttctatagGTGTCATCAAACTTGAGTCCCACGGATTGTTTTGTCCTGCAATCTGGAAAT