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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggttttttttcccccacaatgttggcattactatttaaaagcacaagagtatactcagtagagtagacaactttacaactaacatggagccattctccgttttacctgtctagcttttcttaactattttaatgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATTGCATTTCTGTTTGATGTGGACGATCACTGGGGTCCGCTTGCACACTTGG

Basic information

species Oryza sativa
transcript LOC_Os01g72870.3
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g72870.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G133959_T01 (Zea mays), 3'ss of exon 10
gtggttttttttcccccacaatgttggcattactatttaaaagcacaagagtatactcagtagagtagacaactttac--aactaacatggagccattctccgttttacctgtctag---cttttcttaactatttt--aatgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATTGCATTTCTGTTTGATGTGGACGATCACTGGGGTCCGCTTGCACACTTGG
||   |     | |   || |  ||||  || |||  || |  |||| |  |   | || || |  |  ||| | |     | |||| | |||||  || |   ||||| ||  |||   || |   ||  | |||   | |||| |||||||  |||||||||| ||||||| ||||||||| ||| || ||||| | || || ||| |||| | |||||| ||||||||||| || ||  | ||||| |
gtaactcacaatgctg-actac-ttggtgtt-ctacatacatacacacgcatgggc-cattataacat-caattctgtttgagtaac-tagagcccctc-catctttacttgcatagtggctatgactatttctttctgattgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATGGCCTTTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAG
















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|88270636|gb|CI385894.1|CI385894
EST:     ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG                         CTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
genomic: ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAGgtggtttttt ... tgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
EST: gi|88524518|gb|CI450435.1|CI450435
EST:     ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG                         CTCTCTGAAGAACCGGACTGGAATTTCATCAGGGCAAAACAGGACCAGATT
genomic: ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAGgtggtttttt ... tgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
EST: gi|86537266|gb|CI177472.1|CI177472
EST:     ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG                         CTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
genomic: ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAGgtggtttttt ... tgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
EST: gi|86535030|gb|CI175236.1|CI175236
EST:     ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG                         CTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
genomic: ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAGgtggtttttt ... tgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
EST: gi|88526547|gb|CI454615.1|CI454615
EST:     GTTCTCTTCATGGCAATGACAGAGTTCACGAAG                         CTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
genomic: GTTCTCTTCATGGCAATGACAGAGTTCACGAAGgtggtttttt ... tgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
EST: gi|88975283|gb|CI023534.1|CI023534
EST:     ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG                         CTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT
genomic: ACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAGgtggtttttt ... tgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccattctccgttttacctgtctagcttttcttaactattttaatgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATTGCATTTCTGTTTGATGTGGACGATCACTGGGGTCCGCTTGCACACTTGG
                           ttttcttaactatttt  TA-rich tract