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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGAGGAGCAGAAGAAGCTGGACGTGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactcactctcttctccccttaaaccatttctttgctcagagtgttctcaatatttatggtttttcactgcgatcgcgtgcag

Basic information

species Oryza sativa
transcript LOC_Os01g64660.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g64660.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G836250_T02 (Zea mays), 5'ss of exon 2
GGAGAGGAGCAGAAGAAGCTGGACGTGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactcactctcttctcccctta-aaccatt-----tctttgctcagagtgttctcaatatttatggtttttcact-gcgatcgcgtgcag
|||||||||||||||||||||||||| |||||||||||||||||||||||||| |||||||||||||| |||||||||||||    |   ||| ||| | |   |  |||     | |  | || ||| ||  ||    ||| ||  |   | |  ||    | ||||||
GGAGAGGAGCAGAAGAAGCTGGACGTCCTGTCCAACGAGGTGTTCGTCAAGGCCCTCGTCAGCAGCGGTCGCACCgtacgaatatccctccttgtccacctgcgattattgtccgtttgagttccgagagtgttctgc-tttctgactcggcgcccgccgcggtgtgcag
















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|29682613|gb|CB678888.1|CB678888
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88346774|gb|CI657325.1|CI657325
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGA
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGA
EST: gi|88575674|gb|CI669819.1|CI669819
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTG
EST: gi|88448534|gb|CI693922.1|CI693922
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCG
EST: gi|88340388|gb|CI659594.1|CI659594
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCT
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCT
EST: gi|88320093|gb|CI639421.1|CI639421
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACC
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACC
EST: gi|88321676|gb|CI672817.1|CI672817
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAA
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAA
EST: gi|58590217|gb|CF988525.1|CF988525
EST:     GGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: GGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|218478896|gb|FG959665.1|FG959665
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|33663175|gb|CF294142.1|CF294142
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88331152|gb|CI639563.1|CI639563
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACG
EST: gi|88338555|gb|CI645809.1|CI645809
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTT
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTT
EST: gi|44676478|gb|CR289912.1|CR289912
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88329187|gb|CI653094.1|CI653094
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88381754|gb|CI682426.1|CI682426
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88370994|gb|CI595106.1|CI595106
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88341640|gb|CI641392.1|CI641392
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGAC
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGAC
EST: gi|88576289|gb|CI670434.1|CI670434
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88408548|gb|CI686045.1|CI686045
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGG
EST: gi|88570906|gb|CI662279.1|CI662279
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACG
EST: gi|88359332|gb|CI679859.1|CI679859
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGT
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGT
EST: gi|88326670|gb|CI658392.1|CI658392
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGA
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGA
EST: gi|88343123|gb|CI641649.1|CI641649
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAG
EST: gi|88390100|gb|CI590613.1|CI590613
EST:     TGCTGTCCAAGGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGAC
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGAC
EST: gi|88336728|gb|CI643903.1|CI643903
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGT
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGT
EST: gi|88430397|gb|CI567416.1|CI567416
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|88388836|gb|CI592724.1|CI592724
EST:     TGCTGTC-AACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCAC-                         TGCGTTCTTGTCTCC-AGGAGGA
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGA
EST: gi|88347733|gb|CI655086.1|CI655086
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCG
EST: gi|86848574|gb|CI293902.1|CI293902
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCTGCG
EST: gi|38481229|gb|CF965318.1|CF965318
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTG
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTG
EST: gi|86829513|gb|CI286720.1|CI286720
EST:     TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACC                         TGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCT
genomic: TGCTGTCCAACGAGGTGTTCGTCAAGGCTCTCGTCAGCAGCGGCCGCACCgtacgaactc ... tcgcgtgcagTGCGTTCTTGTCTCCGAGGAGGACGAGGAAGCGACGTTCGTGGACCCT