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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttctgagcttcaccatcccactaagagagatgtcttatatgtttctactatctgaaaatgtctgagacattactcctttatggcaaattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG

Basic information

species Oryza sativa
transcript LOC_Os01g72870.3
intron # 11
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 11
lower sequence: GRMZM2G133959_T01 (Zea mays), 3'ss of exon 9
gtgagttctgagcttcac-catcccactaaga-gagatgtcttatatgtttctactatctgaaaatgtctgagacattactcctttatggcaaattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
||||||||||| |||| |  | || ||||||  ||  ||| |  ||| || |  || ||  |||| || ||||| ||    | |||           |||||||| | || ||||| ||||| || |||||||||||||||||||||   |||
gtgagttctgaacttctcgtaaccaactaaggtgacttgtttcgtattttccacctgtcccaaaacgt-tgagagatctgccgttttccatgcccattgcagTACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAG

upper sequence: LOC_Os01g72870.1 (Oryza sativa), 3'ss of exon 11
lower sequence: AT3G11620.2 (Arabidopsis thaliana), 3'ss of exon 10
----------------------------------------------------------gtgagttctgagcttcaccatcccactaagagagat--gtcttatatgtttctactatctgaaaatgtctgagacattactcctttatggcaaattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
                                                             ||   |||   |  ||||  ||          |   |  | || |||  || |  ||   ||    | ||||       ||| ||   |   | ||||||| || || ||||| ||||||||||||||||||| | ||||||| |   ||
gtattgattatctcatattcactgattttcttgggttttacacttgaacctagttgtataaagacttgaagatggccattacatcttcttttcttgatactttaagttcttattccctactaactattcagacgacttaacttcatctgatgct-tgcagTATCACACCATGCGCAATGTTCTCTTCATGGCAAAGTCAGAGTTTAGAGAG

upper sequence: LOC_Os01g72870.1 (Oryza sativa), 3'ss of exon 11
lower sequence: AT3G11620.3 (Arabidopsis thaliana), 3'ss of exon 10
----------------------------------------------------------gtgagttctgagcttcaccatcccactaagagagat--gtcttatatgtttctactatctgaaaatgtctgagacattactcctttatggcaaattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG-------------------------------------------------
                                                             ||   |||   |  ||||  ||          |   |  | || |||  || |  ||   ||    | ||||       ||| ||   |   | ||||||| || || ||||| ||||||||||||||||||| | ||||||| |   ||                                                 
gtattgattatctcatattcactgattttcttgggttttacacttgaacctagttgtataaagacttgaagatggccattacatcttcttttcttgatactttaagttcttattccctactaactattcagacgacttaacttcatctgatgct-tgcagTATCACACCATGCGCAATGTTCTCTTCATGGCAAAGTCAGAGTTTAGAGAGGTACTCTTCTTTCAACAATGTGTTGTATAGAGTTTAGAGTCTCATTTTG

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:     CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCCGCCATCTCTTATGG                         TACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
genomic: CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCGGCCATCTCTTATGGgtgagttctg ... aattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
EST: gi|88524518|gb|CI450435.1|CI450435
EST:     TGCGGCCATCTGTTATGG                         TACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
genomic: TGCGGCCATCTCTTATGGgtgagttctg ... aattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
EST: gi|86537266|gb|CI177472.1|CI177472
EST:     CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCGCCCATCTCTTATGG                         TACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
genomic: CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCGGCCATCTCTTATGGgtgagttctg ... aattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
EST: gi|86535030|gb|CI175236.1|CI175236
EST:     CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCGGCCATCTCTTATGG                         TACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
genomic: CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCGGCCATCTCTTATGGgtgagttctg ... aattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
EST: gi|88975283|gb|CI023534.1|CI023534
EST:     CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCGGCCATCTCTTATGG                         TACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
genomic: CTTCATGGTCTGTAACGGCTGTCGAAGCTACATGCGGCCATCTCTTATGGgtgagttctg ... aattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctactatctgaaaatgtctgagacattactcctttatggcaaattgtgcagTACCATACGATGCGTAATGTTCTCTTCATGGCAATGACAGAGTTCACGAAG
            tgaaaat  TA-rich tract