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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGACCAATCAAATGCAAGATACATTGAACTCAAAGAAGAAGGGTGACAATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttgcatctgtgtttatattctatatgggtttgtgagaagtgtcaggagagttgcatgatcaaatgtaattagtattcaacatagtatgaacag...

Basic information

species Oryza sativa
transcript LOC_Os04g58750.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g58750.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 10
GTGGACCAATCAAATGCAAGATACATTGAACTCAAAGAAGAAGGGTGACAATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttgcatctgtgtttatattctatatgggtttgtgagaagtgtcaggagagttgcatgatcaaatgtaattagtattcaacatagtatgaacag----
|||||| ||||| ||||||||||| ||||||||||| |||||||||||||||||||||||||| ||||| ||  || |||| ||||| || ||||| ||||||   | ||  ||||   || |||| ||||||| | ||   ||  |       ||||||||||||  ||||| |||||  |   |  |   |||         
GTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTGATTGCTATTCCCAGgtttgatgtgt-tctgctcttctattttatatggatgtgaccgagatact---ggagttgcatgattgaatgtgattagagtcataggttcgatgtcttccaat

upper sequence: LOC_Os04g58750.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA08G01730.1 (Glycine max), 5'ss of exon 11
GTGGACCAATCAAATGCAAGATACATTGAACTCAAAGAAGAAGGGTGACAATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgatt-ttgcatctgtgtttat---attctatatgggtttgtgagaagtgtcaggagagttgcatgatcaaat--gtaattagtattcaacatagtatgaacag
|||||| || || ||||| || |||||||||||||||||||| || |||  ||||||||| || ||||| ||     ||||||||||  | ||| |   |||   |  ||   |  |   ||     |||  | |  |  |     | | | |  |      |   |  |||| |   | | |  | |||  |  | | |      
GTGGACGAACCAGATGCAGGAAACATTGAACTCAAAGAAGAAAGGGGACGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTGATAGCTATACGATGgtcagtaattttcttggcacttggttaattgaagagtgactcagttgcacttttggtcctcctattttctcaatttcatgaattttgttcctctcacttt------

upper sequence: LOC_Os04g58750.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 5'ss of exon 11
GTGGACCAATCAAATGCAAGATACATTGAACTCAAAGAAGAAGGGTGACAATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgat----tttgcatctgtgtttatattctatatgggt-ttgtgagaagtgtcaggagagttgcatgatcaaatgtaattagtattcaacatagtatgaacag-
||||||||| || |||||||| ||||||||||||||||| ||||||||   |||||| || || || || ||     |||||||||| || ||| | |||||  |     ||  |  |    |||||    | |||   | || | |  | | | |  |   ||   | ||||  | || || | |       ||| ||| |||| 
GTGGACCAACCAGATGCAAGAAACATTGAACTCAAAGAAAAAGGGTGATGTTGCTTTCCGGCACAAAGATTTTAGAGCTGCAATTGAATGCTATACCCAGgtcaaaatggttaaccaccccttttatgaattttattattattattattattattattattattattttatcatgtctatttggaa------gtagaatgcacagt

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|88720188|gb|CI743487.1|CI743487
EST:     ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAG                         TTCATTGAAGTTGGTACGATGGTTT
genomic: ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttg ... ttgtatgcagTTCATTGAAGTTGGTACGATGGTTT
EST: gi|86482095|gb|CI124728.1|CI124728
EST:     ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAG                         TTCATTGGAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
genomic: ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttg ... ttgtatgcagTTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
EST: gi|33796952|gb|CF324339.1|CF324339
EST:     ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAG                         TTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
genomic: ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttg ... ttgtatgcagTTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
EST: gi|33675770|gb|CF304009.1|CF304009
EST:     ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAG                         TTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
genomic: ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttg ... ttgtatgcagTTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
EST: gi|29636566|gb|CB641575.1|CB641575
EST:     ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAG                         TTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
genomic: ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttg ... ttgtatgcagTTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
EST: gi|87005460|gb|CI285682.1|CI285682
EST:     ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAG                         TTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
genomic: ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttg ... ttgtatgcagTTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
EST: gi|33679197|gb|CF307436.1|CF307436
EST:     ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAG                         TTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC
genomic: ATGCTTTTCGACAAAAGGACTTCTCTTCTGCAATTGACTGTTATTCTCAGgttgattttg ... ttgtatgcagTTCATTGAAGTTGGTACGATGGTTTCTCCGACCATTTATGCGCGGCGTTGC