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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatgtaattatcgcagaaggcagaattgtgtgtgtttattacttcagttttttggagaattacttaaaggtggaatttgttacag

Basic information

species Oryza sativa
transcript LOC_Os03g43930.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g43930.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA08G13110.1 (Glycine max), 5'ss of exon 4
TCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgta------atgtaattatcgcagaaggcaga-attgtgtgtgtttattacttcagttttttggagaattacttaaaggtggaatttgttacag--------
||| || || || ||| |||||||| |||| | |||||| || ||||| || || ||||||||| | ||||| |||||| |||||||||||||       ||  ||| ||           |  ||||  ||  |  |  |  |   ||| |  ||  ||   ||     |    |||  |            
TCTTCTTGCAATTGCTCAGGAGACCCTGGCGGCGTTCCTTTCAAAAGCTACTGGAACTGCTGTCAACTGGGTCCAAATGATTGGGATGAAGgtgtgacctattcaataattcttcttcatggtcattgcttgcataaaacatatgtatttgtatgattatattttgcctctcattttttctgtcttcgtgtag

upper sequence: LOC_Os03g43930.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA15G13640.1 (Glycine max), 5'ss of exon 4
TCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatgtaattatcgcagaaggcagaattgtgtgtgtttat-----tacttcagttttttggagaattacttaaaggtgga-atttgttacag--------------
||| ||||| ||||||||||||||| ||||||||||||| || || || || || ||||||||||| ||||| || ||| ||||||||||||||   |     |   |  |  |  |||||  ||||||| |     || ||||    ||||    |||  |     |||    ||  ||                  
TCTTCTCGCCATAGCTGAGGAGACCCTGGCAGAGTTCCTTTCCAAGGCTACTGGAACTGCTGTCGACTGGGTCCAGATGATTGGGATGAAGgta---tgccctttttaatattcttaattgcttgtgtttgtatgtatatttcataaatttgtgatattgttgttgtgtgtttgttcattgtgattttcaatgagtag

upper sequence: LOC_Os03g43930.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA09G02750.1 (Glycine max), 5'ss of exon 4
TCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatg-------taattatcgcagaaggcagaattgtgtgtgtttattacttcagttttttggagaattacttaaaggtggaatt-tgttacag------------------------
||| ||||| ||||||||||||||| ||||||||||||| || || || || || ||||||||||| ||||| || ||| |||||||||||||||||       |||| |||   || |   |  || | | | ||| |||  |  || |  |  | || || ||     ||   || ||||   |                        
TCTTCTCGCCATAGCTGAGGAGACCCTGGCAGAGTTCCTTTCCAAGGCTACTGGAACTGCTGTCGACTGGGTCCAGATGATTGGGATGAAGgtaatgccccgtttaataatctttgatgcttggttttttt-tctttcttatgtttgtataattcataaatatttgttaatgttgttgtgtttttgttaattgcaatttgcaatgaatag

upper sequence: LOC_Os03g43930.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT2G34710.1 (Arabidopsis thaliana), 5'ss of exon 4
TCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatgtaattatcgcagaaggc----agaattgtgtgtgtttattacttcagttttttggagaattacttaaaggtggaatttgttacag------------------------------
 || ||  ||||||| |||||| || | ||||||||||| || || || || || |||||||| || ||||| || ||| ||||||||||||||||    |     | |||  |    | | |||| |    | |||   ||  || |||  ||   |   | ||| || | ||  |||                                 
ACTCCTTTCTATAGCAGAGGAGGCCCTAGCAGAGTTCCTTTCCAAGGCTACAGGAACTGCTGTTGACTGGGTTCAGATGATTGGGATGAAGgtaatactttctggcctgaatactcttaaagttgtataatctgatt---tctattcttt--agttgtgtctgaagatgaagttgtttatgattatttgatgaaccttcattgctggtgtag

upper sequence: LOC_Os03g43930.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT1G30490.1 (Arabidopsis thaliana), 5'ss of exon 4
TCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatgtaattatcgcagaa-ggcagaattgtgtgtgtttattacttcagttttttggagaattacttaaaggtggaattt----gttacag------
||| ||| | || || |||||||||||||| |||||||| |  || || || || ||||||||||| ||||| || ||| ||||||||||||||    | ||   | |      |    |  | ||||   || |  |  | ||||| || |||   || ||  || | |||    ||||         
TCTTCTCTCGATTGCGGAGGAGACCTTGGCGGAGTTCCTTTGCAAGGCTACAGGAACTGCTGTCGACTGGGTCCAGATGATTGGGATGAAGgtagataagttgaagtattttaacgttttcatatgtggaaatgaagt--ggtttttagaaaat-gttttaatatgtattttcatggttatgtatgtag

upper sequence: LOC_Os03g43930.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 5'ss of exon 4
TCTACTCGCTATAGCTGAGGAGACCTTGGCAGAGTTCCTGTCGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatgtaattatcgcagaaggcagaattgtgtgtgtttattacttcagtt-ttttggagaattacttaaaggtggaatttgttacag----------
||||||||| ||||||||||||||| |||||||||||||||| || || || || ||||||||||| ||||| || ||| ||||||||||||||   |   | ||     ||      || | |   || |  | ||   ||   ||| || | | |  ||| ||     |  ||  |           
TCTACTCGCAATAGCTGAGGAGACCCTGGCAGAGTTCCTGTCCAAGGCTACTGGAACTGCTGTCGACTGGGTCCAGATGATTGGGATGAAGgtacaatctctttc-----agcttcctttctttaatttcaccagttgctttaccttgtagcagttcccaaatgtaaccatcttttgatttccatgtag

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|58665470|gb|CK054156.1|CK054156
EST:     CGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAG                         CCTGGTCCGGATTCCATTGGAATCATCGCTGTTTCGCACAATTGTAGTGGC
genomic: CGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatgtaat ... tttgttacagCCTGGTCCGGATTCCATTGGAATCATCGCTGTTTCGCACAATTGTAGTGGC
EST: gi|29625769|gb|CB630780.1|CB630780
EST:     CGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAG                         CCTGGTCCGGATTCCATTGGAATCATCGCTGTTTCGCACAATTGTAGTGGC
genomic: CGAAAGCGACGGGTACTGCTGTCGATTGGGTGCAAATGGTTGGGATGAAGgtaatgtaat ... tttgttacagCCTGGTCCGGATTCCATTGGAATCATCGCTGTTTCGCACAATTGTAGTGGC