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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGACAAGGATATCTTGCTATAGCAATTCTTCGTGTTGGAGCACATGGGATCCATATGACTGTAGATGGGAAACATGTCACTTCATTTGCCTTTCGGGAGgtgagtcttttttaggcaatctagtatgttttatatcttgaaatattttgtaggcatttttttctgagtgtgcaaaaatatttgttcttccatagttcatacacacaaagaattgaaactcattttattctcctcagctctcttatgtcaaaatatgtttggattgctatttttcttactaatgtattcttttaccag

Basic information

species Oryza sativa
transcript LOC_Os06g12390.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g12390.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G164072_T01 (Zea mays), 5'ss of exon 2
CAGACAAGGATATCTTGCTATAGCAATTCTTCGTGTTGGAGCACATGGGATCCATATGACTGTAGATGGGAAACATGTCACTTCATTTGCCTTTCGGGAGgtgagtcttt--tttaggcaatctagtatgt-tttatatcttgaaatattttgtaggca----tttttttctgagtgtgcaaaaatatttgttcttccatagttcatacacacaaagaattgaaactcattttattctcctcagctctcttatgtcaaaatatgtttggattgctatttttcttactaatgtattcttttaccag
||| || |||||||||||| |||||||||||||| | |||||||||||||||||||||||||||||||| |||||| ||||||| ||||| ||||| |||||    | |   | ||   ||   |  |||  |||  ||  |  |  | ||| |||| |    | |||| |    ||||| ||| ||||| ||| |  |||                                                                                                        
CAGGCAGGGATATCTTGCTGTAGCAATTCTTCGTATCGGAGCACATGGGATCCATATGACTGTAGATGGCAAACATATCACTTCGTTTGCATTTCGAGAGgtattgcataagtataaataacgcatcatgcctttgcattctacagcaatttataggaaaaaatattttcccctatgtgctaaagtattt-ttcatttata--------------------------------------------------------------------------------------------------------

upper sequence: LOC_Os06g12390.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G042607_T01 (Zea mays), 5'ss of exon 2
CAGACAAGGATATCTTGCTATAGCAATTCTTCGTGTTGGAGCACATGGGATCCATATGACTGTAGATGGGAAACATGTCACTTCATTTGCCTTTCGGGAGgtgagtcttt------tttaggcaatctagtatgttttatatcttgaaatattttgtaggca---tttttttctgagtgtgcaaaaatatttgttcttccatagttcatacacacaaagaattgaaactcattttattctcctcagctctcttatgtcaaaatatgtttggattgctatttttcttactaatgtattcttttaccag
|||||| |||||||||||  |||||||||||||  | |||||||||||||||||||||||||||||||| |||||| ||||||| ||||| || || |||||  ||||        | ||   || ||       |||  ||| |  || | ||| ||||||   |  |||||    ||||| | | |||||||  || |                                                                                                           
CAGACAGGGATATCTTGCCGTAGCAATTCTTCGGATCGGAGCACATGGGATCCATATGACTGTAGATGGCAAACATATCACTTCTTTTGCATTCCGAGAGgtaggtctcgcataaatataaataaccttcacgcctttgcatcctacaacaatttataggcaaaatgattttccctatgtgctagagtatttgtcatttc-----------------------------------------------------------------------------------------------------------
















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|58599356|gb|CK009884.1|CK009884
EST:     TCCATATGACTGTAGATGGGAAACATATCACTTCATTTGCCTTTCGGGAG                         GATTTGGAGCCTGGATTTGTTGGTGAAGTAAGAATTGCAGGAGATATTAAA
genomic: TCCATATGACTGTAGATGGGAAACATGTCACTTCATTTGCCTTTCGGGAGgtgagtcttt ... cttttaccagGATTTGGAGCCTGGATTTGTTGGTGAAGTAAGAATTGCAGGAGATATTAAA