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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAACACGAGGAGTAGAAGAGGAATCCATCTTACAAGCTTTGCCTGCTGATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtggttatttacttacatttcaactgaattagtagaatgttttagtttctgaaaggttttagatgttaaattttctagtggcattctgtcgtttggatggaaaaatcagtgacaaaagtaccaccagtgctacttcatagtctagcatgttttcttatcccttcctaaaatgcag

Basic information

species Oryza sativa
transcript LOC_Os09g38580.5
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g38580.5 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G135651_T02 (Zea mays), 5'ss of exon 6
TGCAACACGAGGAGTAGAAGAGGAATCCATCTTACAAGCTTTGCCTGCTGATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtggttattta-cttacatttcaactga------attagtagaatgttttagtttctgaaaggttttagatgttaaattttctagtggcattctgtcgtttggatggaaaaatcagtgacaaaagtaccaccagtgctacttcatagtctagcatgttttcttatcccttcctaaaatgcag
||| ||| ||||||||||||| ||||||||||| |||||||||||||||||||| || |||||||| ||||| ||||||||||||||||| ||| |||||||||||||||||||| || | ||     || ||        || ||||||   |||||||||  | ||| || | |||| |||         || |  ||||| |      ||      |   |||    | |  |  || | || |     ||                                   
TGCTACAAGAGGAGTAGAAGAAGAATCCATCTTGCAAGCTTTGCCTGCTGATATTCGTCGGGATGTGCAGCGTCATCTTTGTTTGGACCTCGTTAGACGTgtaagttgtggttatataacctagcccccatctcgcagatgataagtagagc-ttttagttttcggaagcttcttgatggtaataaacaagttgacgctctgttgcaccattg-----ctttttgattccatt--ctgcatttctgcaatgcag-----------------------------------

upper sequence: LOC_Os09g38580.5 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA06G08170.1 (Glycine max), 5'ss of exon 8
TGCAACACGAGGAGTAGAAGAGGAATCCATCTTACAAGCTTTGCCTGCTGATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtggttatttacttacatttcaactgaattagtagaatgttttagtttctgaaaggttttagatgttaaattttctagtggcattctgtcgtttggatggaaaaatcagtgacaaaagtaccaccagtgctacttcatagtctagcatgttttcttatcccttcctaaaatgcag
|||||| || || || || || ||| | ||| | |  |   | ||| ||||  ||||  | ||| | || ||||| ||||| |||||||||||||||||||||||||               |||  ||| ||  |  |||  | | | |  | | |  |      || ||||| |||  |  | |  | | |   | | |  |    || |                                                                      
TGCAACTCGCGGGGTTGATGAAGAAACAATCCTGCGTGGCCTTCCTACTGACCTACGTAGAGATATCCAACGCCACCTTTGCTTGGACCTTGTTCGACGTgtaagtt------------cctcataacaaatgtttatgtatcaagctatgctcttttgacatgaataaatgttcaataattaaattccctccatgcatatcaactacaata----------------------------------------------------------------------

upper sequence: LOC_Os09g38580.5 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv04s0069g00790.t01 (Vitis vinifera), 5'ss of exon 6
TGCAACACGAGGAGTAGAAGAGGAATCCATCTTACAAGCTTTGCCTGCTGATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg----gttatttacttacatttcaactgaattagtagaatgttttagtttctgaaaggttt-tagatgt-taaattttctagtggcattctgtcgtttggatggaaaaatcagtgacaaaagtaccaccagtgctacttcatagtctagcatgttttcttatcccttcctaaaatgcag
||| || || ||||| || || || || || ||||  || || ||| | ||| |||| || ||| | ||||||||||| || |||||||||||||||||||||||||        ||||| ||         |||  |||  ||  | ||||| | |||   ||| ||   || || |  | |   | ||   | || |                                                                                         
TGCTACTCGTGGAGTTGATGAAGAGTCAATTTTACGTGCCTTACCTACAGATTTACGTCGAGATATCCAGCGCCATCTATGCTTGGACCTTGTTCGACGTgtaagttccctagcattattaacaagggccataacacaatctgttcactgtttcaattttaaaaatgtcaatacatctgcagacagtataaaagtataca----------------------------------------------------------------------------------------

upper sequence: LOC_Os09g38580.5 (Oryza sativa), 5'ss of exon 6
lower sequence: EFJ17870 (Selaginella moellendorffii), 5'ss of exon 5
TGCAACACGAGGAGTAGAAGAGGAATCCATCTTACAAGCTTTGCCTGCTGATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtggttatttacttacatttca-actgaattagtagaatgttttagtttctgaaaggttttagatgttaaattttctagtggcattctgtcgtttggatggaaaaatcagtgacaaaagtaccaccagtgctacttcatagtctagcatgttttcttatcccttcctaaaatgcag
  ||||  ||||||| || ||||||    || | ||| | || |||   ||| | || || ||| |  ||||||||||||||||||||||||||||||  |||||      | ||  |      |||   |    || |||   | ||||   | ||                                                                                                                              
CACAACCAGAGGAGTTGACGAGGAAATGCTCGTGCAAACATTACCTCTGGATCTCCGACGCGATATCAAGCGCCATCTTTGTTTGGACCTTGTTCGACAAgtaagc-aaaatgatccatcagtgtttggcaaaccatgagtttgacgtttctttctccag---------------------------------------------------------------------------------------------------------------------------

upper sequence: LOC_Os09g38580.5 (Oryza sativa), 5'ss of exon 6
lower sequence: EFJ16402 (Selaginella moellendorffii), 5'ss of exon 7
TGCAACACGAGGAGTAGAAGAGGAATCCATCTTACAAGCTTTGCCTGCTGATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtggttatttacttacatttca-actgaattagtagaatgttttagtttctgaaaggttttagatgttaaattttctagtggcattctgtcgtttggatggaaaaatcagtgacaaaagtaccaccagtgctacttcatagtctagcatgttttcttatcccttcctaaaatgcag
  ||||  ||||||| || |||||||   || | ||| | || |||   ||| | || || ||| |  ||||||||||||||||||||||||||||||  |||||      | ||  |      |||   |    || |||   | ||||   | ||                                                                                                                              
CACAACCAGAGGAGTTGACGAGGAATTGCTCGTGCAAACATTACCTCTGGATCTCCGACGCGATATCAAGCGCCATCTTTGTTTGGACCTTGTTCGACAAgtaagc-aaaatgatccatcagtgtttggcaaaccatgagtttgacgtttctttctccag---------------------------------------------------------------------------------------------------------------------------

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|218491588|gb|FG968081.1|FG968081
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|33799967|gb|CF325851.1|CF325851
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|218480611|gb|FG959509.1|FG959509
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|218482040|gb|FG945150.1|FG945150
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|58591918|gb|CF990226.1|CF990226
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|38470712|gb|CF954843.1|CF954843
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|218481701|gb|FG969559.1|FG969559
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|58654972|gb|CK043652.1|CK043652
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|218481355|gb|FG967242.1|FG967242
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
EST: gi|1854260|gb|AA231874.1|AA231874
EST:     ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGT                         GTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG
genomic: ATATACGCCGGGATGTACAGCGCCATCTTTGTTTGGACCTTGTTCGACGTgtaagttgtg ... taaaatgcagGTCCCATTTTTCTCGGAGATGGATTACCAACTTCTAGACGCCATCTGCGAG