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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAGTTTCATCCTGTTCAGATCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataattgcgtgtcatcctactattgagtatgtattttttttcctatctgtggttggttactaatcaagcatactcagctctatcctaattgccatc...

Basic information

species Oryza sativa
transcript LOC_Os01g10150.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 12
TTCAGTTTCATCCTGTTCAGATCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataattgcgtgtcatcctactattgagtatgtattttttttcctatctgtggttggttactaatcaagcatactcagctctatcctaattgccatc--------
||||||| | ||| | ||| | ||||||||||||||||||||||||||||||||||||||  | |||||| | ||||| ||   |||||||||||||||||||| | ||      |  |  |    |  |  || | |     ||| | ||| |  ||  ||| ||   ||  ||| ||||||||  |||  |||   |         
TTCAGTTGCCTCCAGCTCAAACCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACATCTCAAGTATACGAACTTTCTAGTTACTTTCTTCACAAGgtaagtgatca---attttgttgacttcaaagatctgtaagggttctt-tcttttttttcttaata--taatgatattcagctct--cctgcttgttttagagaaaaa

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 12
TTCAGTTT--CATCCTGTTCAGATCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataa--ttgcgtgtcatcc-tactattgagtatgtattttttttcctatct--gtggttggttactaatca--agcatactcagctctatcctaatt-gccatc--------------------------------------------------
  |||| |  | || |||||  |||| |||||  | ||||||||||||||||||||||| || || |||||  |||||||||| |  | ||| |||||||||||     |  ||  || | | |  |   |||  |  |||  | ||  |  ||||   ||     |||  |||  |  | |||  | | || |||  || ||  | |                                                    
--CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgttggctagtttatgttttagctgtggcattatgcgtgtgatgttggtgatatcatagtatcatgtttgtaactattatcat-tttatctgtatagtattttactaattttgttttgaacttaatgtagtctaacaaactcatgtttctttttaatag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA04G09070.2 (Glycine max), 5'ss of exon 12
TTCAGTTT--CATCCTGTTCAGATCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataa--ttgcgtgtcatcc-tactattgagtatgtattttttttcctatc-tgtggttggttactaatcaagcatactcagctctatcctaattgccatc-----------------------------------------------------
  |||| |  | || |||||  |||| |||||  | ||||||||||||||||||||||| ||||| |||||  |||||||||| |   |||| |||||||||||     |  ||  || | | |  |   |||  |  |||  | ||  |  |||| | |  |    |    | | |  ||  |    ||| | ||   |   |                                                       
--CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACCGCACAAGTTTATGAACTCTCTCCCCACTTCCTTCACAAGgttggctagtttatgttttagcggtggcattatgcgtgtggtgttggtgatatcctattatcatctttgtaactattatcgttttatctgtactgtattttactaattttgtttttaacttaacgtaggctaacaaactcacgtttctgtttaatag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA04G09080.1 (Glycine max), 5'ss of exon 12
TTCAGTTT--CATCCTGTTCAGATCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataattgcgtgtcatcctact---attgagtatgtattttttttcctatc-tgtggttggttactaatcaagcatactcagctctatcctaattgccatc-----------------------------------------------------
  |||| |  | || |||||  |||| |||||  | ||||||||||||||||||||||| ||||| |||||  ||||||| || |   |||| |||||||||||     | |   |||  |  |  |   |||  | ||||  | ||  |  |||| | |  |    |    | | |  ||  |    ||| | ||   |   |                                                       
--CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACCGCACAAGTTTATGAACTGTCTCCCCACTTCCTTCACAAGgtttgctagtttatgttttagtggtggcattatgcatgtggtgttggtgatatcatattatcatctttggaactattatcgttttatctgtactgtattttactaattttgtttttaacttaacgtaggctaacaaactcacgtttctgtttaatag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 5'ss of exon 12
TTCAGTTT--CATCCTGTTCAGATCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaata--attgcgtgtcatcctactattgagtatgtattttttttcctatctgtggt-tggttactaatca--agcatactc-agctctatcctaattgccatc----------------------------------------------------------------------
  |||| |  | || |||  | || |||||||  ||||||||||||| |||||||||||||| || |||||  |||| || || |  || ||||||||||||||   |   ||| | | |  |    | || |  ||  ||||| | ||   || |||  |    |||    |||  || ||  || ||   |||   ||  || |                                                                        
--CAGTGTAGCGTCTTGTCAAAATTTGTGGGCGCTAATTATGGATGCAGGCACTGGTTTTACTGCACAAGTTTATGAGCTTTCACCCTATTTTCTTCACAAGgtgcgtctcatttcttttgtttaacccatggcatacatatttatctttacatgtgtcatgcaattaaatttcatcagtatgatcgaggcatattacaag-gctacttctttcagcttactgttatacatttaattttaacaagtgatcaattaatctttttttgttctgtctatag

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|87040610|gb|CI195232.1|CI195232
EST:     CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
genomic: CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
EST: gi|29645032|gb|CB650039.1|CB650039
EST:     CTGGTTTTTCCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATCGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
genomic: CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
EST: gi|27546382|gb|CA764550.2|CA764550
EST:     CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
genomic: CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
EST: gi|29688779|gb|CB685054.1|CB685054
EST:     CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
genomic: CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
EST: gi|29670786|gb|CB667061.1|CB667061
EST:     CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
genomic: CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
EST: gi|89195193|gb|CI051306.1|CI051306
EST:     CAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
genomic: CAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
EST: gi|29670785|gb|CB667060.1|CB667060
EST:     CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
genomic: CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT
EST: gi|58611769|gb|CK039481.1|CK039481
EST:     CTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCGTTGGGC
genomic: CTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTC-TTTGGC
EST: gi|3766584|gb|AU030694.1|AU030694
EST:     CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAG                         GAATGGATAATGGAGCAGTGGGAGAGCAATTACTATATTACTTCTTTGGCT
genomic: CTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataatt ... gctttgatagGAATGGATAATGGAGCAGTGGGAGAGAAATTACTATATTACTTCTTTGGCT