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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTAATGAACCTTGTGGGTTACTGTGAAGATGAAGAACCATTCACTCGGATGATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATGgtaagaaaacttcacatttagtttgttattcttcgcaccaagatcagtcacgctatcagcagctattcatgatcaccattaaaacattgttgttgcag

Basic information

species Oryza sativa
transcript LOC_Os05g39410.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g39410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G095588_T01 (Zea mays), 5'ss of exon 7
TTAATGAACCTTGTGGGTTACTGTGAAGATGAAGAACCATTCACTCGGATGATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATGgtaag------------aaaacttcacattt----agtttgttattcttcgcaccaagat--cagtcacgctatcagcagctattcatgatcaccattaaaacattgttgttgcag------------------------------------------------------------------------
 |  |||||||||||||||| |||||||| ||| ||||||||| ||||||||||||||| ||||||| |||||||||| |||| ||||| | |||||||||| ||                | |  | |||     || |||| |      |  |||     ||    |  | | | | | ||||     ||  ||   ||    |  || ||                                                                           
CTTTTGAACCTTGTGGGTTATTGTGAAGACGAAAAACCATTCATTCGGATGATGGTGTTCGAGTATGCTTCAAATGGATCACTATTTGAGCGCTTGCATGgtgagttttaattgtgggttgcctttcttttcaggggtatgttgtggggtactgcaaagctgcaaaagccttgttatctgttattagcagtcttcacacaagggctcatgatgttagcagttgtgacaggaaaattcatataagcaggtttacaaattctaattatcatcaaaacattgttgttgcag

upper sequence: LOC_Os05g39410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA02G39470.1 (Glycine max), 5'ss of exon 10
TTAATGAACCTTGTGGGTTACTGTGAAGATGAAGAACCATTCACTCGGATGATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATGgtaagaaaacttcacatttag-tttgttattcttcgcaccaagatcagtcacgctatcagcagctattcatgatcaccattaaaacattgttgttgcag----
||  |||| ||  | || || ||||||||  |  | |||||| |  | ||||||||| ||||||||| | ||||||||||||| ||||| ||  | ||  || ||  |  ||   ||  |  |||  ||   | | || | | |||  ||     || |  |     ||||    |||  |||    ||      | ||    
TTTGTGAATCTCATTGGGTATTGTGAAGAGAATAAGCCATTCTCAAGAATGATGGTGCTTGAGTATGCTCCAAATGGAACACTATTTGAGCATCTACACAgtgagtgacattttgatcaaaatttactaacatccacaaccatatcc-tcctttgattattacaggctcatagcaacc--taacttcttcaaccagaagtaaa

upper sequence: LOC_Os05g39410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA14G37630.1 (Glycine max), 5'ss of exon 8
TTAATGAACCTTGTGGGTTACTGTGAAGATGAAGAACCATTCACTCGGATGATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATGgtaagaaaacttcacatttagtttgttattcttcgcaccaagatcagtcac--gctatcagcagctattcatgatc--accattaaaacattgttgttgcag
||  |||| ||| | || || ||||||||  |  | |||||| |  | ||||||||||||||||| | | ||||||||||||| ||||| ||  ||||  || || ||  ||   ||  | |||  |    | | || | | |||   |      ||| |   |||| |    | |  ||   |  |||   | |||     
TTTGTGAATCTTATTGGGTATTGTGAAGAGAATAAGCCATTCTCAAGAATGATGGTGTTTGAGTACGCTCCAAATGGAACACTCTTTGAGCATCTGCACAgtgagtaacattttgatcaaatttacttacatccacagccatatcctcctttgattattacaggctaatagcaacctaacttcttcaaccaggctgtgag--

upper sequence: LOC_Os05g39410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G56050.2 (Arabidopsis thaliana), 5'ss of exon 6
TTAATGAACCTTGTGGGTTACTGTGAAGATGAAGAACCATTCACTCGGATGATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATGgtaagaaaacttcacatttagtt-tgttattcttcgcaccaagatcagtcacgctatcagcagctattcatgatcaccattaaaacattgttgttgcag
||  | |||||| | |||||||||||||| |||||||| |||||| ||||  |||| ||||| ||||  ||||| |||||| | |||||||| || ||  ||||| ||        ||||||  | | | || |     ||   | |||      || |  ||   |     | ||  |||     | | ||| |||||
TTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaacaaagctctttagtcatatgagtcattattacactgtaagttgtcagattaaaag---tgggaaaacaatatt----tacttttgctgcag

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|24468931|gb|CA305880.1|CA305880
EST:     GATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATG                         TTAAAGAAGCAGACCAATTAGACTGGCAGTCACGGCTTACGGATAGCGATG
genomic: GATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATGgtaagaaaac ... gttgttgcagTTAAAGAAGCAGACCAATTAGACTGGCAGTCATG-CTTACGGATAGCGATG