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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCATACCAAGCATTGACCTTGTTCATCGTCGGCCCTTTCCTTGATGGGTTTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTGgtaagcagtaaactgagttttggagacttatgttgaacgtagctgtgcttcatctgactcggttctttacggtatctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g07310.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g07310.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G116053_T01 (Zea mays), 5'ss of exon 6
CCCATACCAAGCATTGACCTTGTTCATCGTCGGCCCTTTCCTTGATGGGTTTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTGgtaagcagtaaactgagttttggaga-cttatgttgaacgtagctgt-gcttcatctgact-cggttct----ttacggtatctgcag
||||||||| |||||||| |||||| | ||||| || ||||| ||||| |||||||| |||||||||||||||||||| || |||||| |||||||| ||||||||| || ||   | ||||| ||  ||  ||| |  || | | | ||| |||||||    || |||    ||   |  |||||||
CCCATACCAGGCATTGACGTTGTTCCTTGTCGGTCCATTCCTCGATGGATTTTTGACCAACCAAAATGTCTTTGCTTTCGACTACACAACTCAAGTTCTGgtaagcattagaccaggctttggggagtttgcgttaactgtcgatatcgctccatctgatcatgggtctgcatttgttgcctctgcag

upper sequence: LOC_Os01g07310.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G081848_T03 (Zea mays), 5'ss of exon 6
CCCATACCAAGCATTGACCTTGTTCATCGTCGGCCCTTTCCTTGATGGGTTTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTGgtaagcagt---aaactgagttttggaga---cttatgtt---------gaacgtagctgtgcttcatctgact-cggttct----ttacggtatctgcag----
|||||||||||||||||| |||||| |||||||||| ||||||||||||||||||||||||||||| ||||||||||| || |||||| |||||||  ||||||||| |   || |   | || || |    ||||||||         ||  |||  |    |||||||||   ||| |||    |||| || ||||||     
CCCATACCAAGCATTGACTTTGTTCCTCGTCGGCCCATTCCTTGATGGGTTTTTGACTAACCAAAACGTCTTTGCTTTCGACTACACAACTCAAGTCCTGgtaagcattgttaatccaggcttcggggggagcttatgttttagctgtcgatagtactttcatttcatctgatcacgggtctacacttactgtctctgcatgcag
















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|157650172|gb|EX449806.1|EX449806
EST:     TTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTG                         TTTTTCATTGTGCTGTCATGCTTGATATCAGTCTCAGTGAACTTCGGCACT
genomic: TTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTGgtaagcagta ... gtatctgcagTTTTTCATTGTGCTGTCATGCTTGATATCAGTCTCAGTGAACTTCAGCACT
EST: gi|29663299|gb|CB659574.1|CB659574
EST:     TTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTG                         TTTTTCATTGTGCTGTCATGCTTGATATCAGTCTCAGTGAACTTCAGCACT
genomic: TTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTGgtaagcagta ... gtatctgcagTTTTTCATTGTGCTGTCATGCTTGATATCAGTCTCAGTGAACTTCAGCACT
EST: gi|86899011|gb|CI296202.1|CI296202
EST:     TTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTG                         TTTT-CATTGTGCTGTCATGCTTGA
genomic: TTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTGgtaagcagta ... gtatctgcagTTTTTCATTGTGCTGTCATGCTTGA
EST: gi|428121|gb|D24269.1|D24269
EST:     TTTTGACTAACCAAAATGTCTTTGCTTNTGATTACACATCTCAAGTTGTG                         NTTTTCANTGTGCTGTNATGCTTGATATCAGTCTCAGT
genomic: TTTTGACTAACCAAAATGTCTTTGCTTTTGATTACACATCTCAAGTTGTGgtaagcagta ... gtatctgcagTTTTTCATTGTGCTGTCATGCTTGATATCAGTCTCAGT