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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACATGGATGTGTCGCAGTATCGTCGCCAGCGTGATATCACTGTTGAAGGCCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatttcaaatcggggttctgttaactgttatagcaatctgtatctctggataatacggcaacatgtcttggatgaaataatcgttctatttttttttcattttttaacag

Basic information

species Oryza sativa
transcript LOC_Os01g68320.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68320.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G362850_T01 (Zea mays), 5'ss of exon 3
GACATGGATGTGTCGCAGTATCGTCGCCAGCGTGATATCACTGTTGAAGGCCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatttcaaatcggggttctgttaactgttatagcaatctgtatctctggataatacggcaacatgtcttggatgaaataatcgttctatttttttttcatt-ttttaacag
||   ||||||| ||||||| || ||||  || ||||||||  | || ||||  || ||||||||||||||| | ||||||||||| ||||||||||||||||| || |           ||||   |   |  | |       ||| ||  | || ||||  |||| |  | |       | |  |    ||| | |||  | | | |||| ||||
GAGGCGGATGTGGCGCAGTACCGCCGCCTCCGGGATATCACCATCGAGGGCCGGGATGTGCCCAAGCCGGTTAGATACTTCCAGGAAGCCAACTTCCCAGgtttactct----------agttccagtgtttcctgt----gcgtgtgtccgttgaaaataacgcaatacctgt------gatttcttacactactgtttcatgactcttttgacag

upper sequence: LOC_Os01g68320.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G324146_T01 (Zea mays), 5'ss of exon 1
GACATGGATGTGTCGCAGTATCGTCGCCAGCGTGATATCACTGTTGAAGGCCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttg--ctatttcaaat----------cggggttctgttaactgttatagca-atctgtatctctggataatacggcaacatgtcttggatgaaataatcgttctatttttttttcattttttaacag------------
 |    || ||||| || ||  | | ||  |  |||||||| || || |||   || |||||||||||||| || |||||||| || |||||||||||||||||   | | ||| | |          || |  || ||| |  || ||   | | ||||   |    ||| |||     || |  |     | ||||    |  | || || |   |   ||| ||              
AAGGCAGAGGTGTCACAATACTGCCACCTCCAGGATATCACGGTCGAGGGCTGGGATGTGCCCAAGCCGGTCCGATACTTCCAAGAAGCCAACTTCCCAGgtttagtccacttccactgtttcctgtccgtgagtccgttgaaagtaatgcaatacctgtgagttcttatactactatttcacgattccttcgcaatacctatgat-ttcttatactaccgtttcacgattcctttaacag
















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|66920314|gb|CX107162.1|CX107162
EST:     ACACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAG                         ATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
genomic: CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatt ... tttttaacagATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
EST: gi|33678998|gb|CF307237.1|CF307237
EST:     CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAG                         ATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
genomic: CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatt ... tttttaacagATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
EST: gi|33801394|gb|CF326568.1|CF326568
EST:     CCACGACGTGCCCATTCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAG                         ATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
genomic: CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatt ... tttttaacagATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
EST: gi|29661777|gb|CB658052.1|CB658052
EST:     CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAG                         ATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
genomic: CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatt ... tttttaacagATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
EST: gi|29678103|gb|CB674378.1|CB674378
EST:     CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAG                         ATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
genomic: CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatt ... tttttaacagATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
EST: gi|29669296|gb|CB665571.1|CB665571
EST:     CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAG                         ATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA
genomic: CCACGACGTGCCCAAGCCGGTTCGCTACTTCCAGGAGGCCAACTTCCCAGgtttgctatt ... tttttaacagATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTA