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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctgatttagtttagtggaatattattctatgtagtttcccccttttcttttagctcatgcaggagacttactgtacttcattcag

Basic information

species Oryza sativa
transcript LOC_Os01g19150.5
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g19150.4 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G075992_T01 (Zea mays), 5'ss of exon 5
CCTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctgatttagtttagtggaatattattctatgtagtttcccccttttcttttagctcatgcaggagacttactgtacttcattcag
|||||||||||||| |||||||| ||||| || |||||||||||||| ||||||| |  ||| ||  || | | ||| |||   || ||    || | | ||| |  ||  ||||||   ||| |||| |    ||| |||||
CCTGTTTTTCCTGGGGACAGTGGTGTCGATCAGCTTGTTGAAATTATTAAGgtaatag-tgacttctttcaattgaagatttagct-tgctagttacacatttccagttgactcatg---gaggcttatt---tttctttcag

upper sequence: LOC_Os01g19150.4 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA02G01220.1 (Glycine max), 5'ss of exon 9
CCTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctgatttagtttagtggaatattattctatgtagtttccccctttt-------cttttagctcatgcaggagacttactgtacttcattcag--
||| | || |||||||| ||||| || || || |||||||||||||||||||||| ||    | ||      |  | | ||  ||| |  | |     | |||         |||  |  | ||||    |    ||| || | | |     
CCTCTATTCCCTGGTGAGAGTGGAGTAGATCAGCTTGTTGAAATTATCAAGgtaagataaattctaaagatttatagt-ttgctctgtaaaatccaggcatttcatggctgttttgtgtccttgcattgaatgatctgcacatgagtttatt

upper sequence: LOC_Os01g19150.4 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA10G01280.1 (Glycine max), 5'ss of exon 9
CCTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctgatttagtttagtggaatat-tattctatgtagtttcccccttttcttt-tagctcatgcaggagact---tactgtacttcattcag------
||| | || |||||||| ||||| || || || |||||||||||||||||||||| ||  | | ||    ||   ||||| |  |||||  | |     | || | ||    |||  |    |    |   | |||  | |   |  |      
CCTCTATTCCCTGGTGAGAGTGGAGTAGATCAGCTTGTTGAAATTATCAAGgtaagataagttctaa---agattaatatgtgctctatacaatccaggcattctgttaacggcttttttgtgtctttgcatgctggtccttgctttgaatgat

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|29628248|gb|CB633259.1|CB633259
EST:     CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
EST: gi|33683226|gb|CF311465.1|CF311465
EST:     CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
EST: gi|29668828|gb|CB665103.1|CB665103
EST:     CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
EST: gi|8856575|gb|AU093893.1|AU093893
EST:     TGAAATTATCAAG                         GTACTGGGTACTCCCAACAA-GGNAGAATTCAAACATATGAATCGGAACTA
genomic: TGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACT-CCAACAAGGGAAGAAATCAAACATATGAATCCGAACTA
EST: gi|58675098|gb|CK063785.1|CK063785
EST:     GTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: GTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
EST: gi|29666992|gb|CB663267.1|CB663267
EST:     CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
EST: gi|29628183|gb|CB633194.1|CB633194
EST:     CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
EST: gi|29666642|gb|CB662917.1|CB662917
EST:     CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
EST: gi|218502361|gb|FG956952.1|FG956952
EST:     CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAG                         GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC
genomic: CTGTTTTTCCTGGTGACAGTGGCGTCGACCAACTTGTTGAAATTATCAAGgtaacatctg ... cttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTAC