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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGAACTATGGAACTATCCAAGTTTCTTCAGGAACCTCATTCCACAAAATTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaaaatttagactcaatttataccactaccagtagaggatcatgattttgcaccatgtcaagttggtacaagctagggtccaccaagaataat...

Basic information

species Oryza sativa
transcript LOC_Os12g26290.6
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g26290.6 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G312997_T01 (Zea mays), 5'ss of exon 8
CTTGAACTATGGAACTATCCAAGTTTCTTCAGGAACCTCATTCCACAAAATTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaaaatttagactcaatttataccactaccagtagaggatcatgattttgcaccatgtcaagttggtacaagctagggtccaccaagaataat---------
||||||||||||||||| ||||||||||||||| ||||||| ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||| |    ||||| ||| |||||| ||||| || |||||||||||||||||||||||||||||||| ||| ||||    ||||||||||||||||| |         
CTTGAACTATGGAACTACCCAAGTTTCTTCAGGGACCTCATACCACAAAATTTGGATGGTACCAATCGATCTGACAGGATCGACCTTGCTGCCCTAGAAGgtatga----aatttggacccaatttgtacca-tatcagtagaggatcatgattttgcaccatgtcaaattgttaca----agggtccaccaagaatactccaatgcat
















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|29628821|gb|CB633832.1|CB633832
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29674052|gb|CB670327.1|CB670327
EST:     TGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29673790|gb|CB670065.1|CB670065
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29665953|gb|CB662228.1|CB662228
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29677262|gb|CB673537.1|CB673537
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29626273|gb|CB631284.1|CB631284
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|25800115|gb|CA756076.1|CA756076
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29622061|gb|CB627072.1|CB627072
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29623849|gb|CB628860.1|CB628860
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29626126|gb|CB631137.1|CB631137
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29613621|gb|CB618634.1|CB618634
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29625599|gb|CB630610.1|CB630610
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29615924|gb|CB620936.1|CB620936
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29679635|gb|CB675910.1|CB675910
EST:     ACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: ACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29622414|gb|CB627425.1|CB627425
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29613585|gb|CB618598.1|CB618598
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29617673|gb|CB622685.1|CB622685
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29628686|gb|CB633697.1|CB633697
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29625533|gb|CB630544.1|CB630544
EST:     AATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: AATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29629208|gb|CB634219.1|CB634219
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|33675490|gb|CF303729.1|CF303729
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29625520|gb|CB630531.1|CB630531
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29626851|gb|CB631862.1|CB631862
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29615979|gb|CB620991.1|CB620991
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29625912|gb|CB630923.1|CB630923
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29627805|gb|CB632816.1|CB632816
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29625916|gb|CB630927.1|CB630927
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29626294|gb|CB631305.1|CB631305
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29623659|gb|CB628670.1|CB628670
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29665952|gb|CB662227.1|CB662227
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29625788|gb|CB630799.1|CB630799
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29613657|gb|CB618670.1|CB618670
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29625831|gb|CB630842.1|CB630842
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29624044|gb|CB629055.1|CB629055
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29627803|gb|CB632814.1|CB632814
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29622491|gb|CB627502.1|CB627502
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29623095|gb|CB628106.1|CB628106
EST:     AATCGACCTTGCT-CATCTAAAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGG
genomic: AATCGACCTTGCTGC-CCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGG
EST: gi|29622940|gb|CB627951.1|CB627951
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
EST: gi|29623590|gb|CB628601.1|CB628601
EST:     TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAG                         TATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA
genomic: TTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaa ... taaattaaagTATACCGAGACAGGGAGAGAAGTGTACCAAGGTACAATGAGTTCAGGAGGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTGAACTATGGAACTATCCAAGTTTCTTCAGGAACCTCATTCCACAAAATTTGGATGGTACCAATCGATCTGACAGAATCGACCTTGCTGCCCTAGAAGgtataattaaaatttagactcaatttataccactaccagtagaggatcatgattttgcaccatgtcaagttggtacaagctagggtccaccaagaataat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC