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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAATTGGATCTTCTTGTTGGTCTTATGGCAGAGAAAAAAATCAAGGGATTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacatttagttctaactaatattgaatgctagacaaagtaccaatttttgtttaagcccttgctaaacgtattaggcaacaaccgagaatgtggctta...

Basic information

species Oryza sativa
transcript LOC_Os12g26290.5
intron # 9
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 11
lower sequence: GRMZM2G312997_T01 (Zea mays), 5'ss of exon 9
AGAAATTGGATCTTCTTGTTGGTCTTATGGCAGAGAAAAAAATCAAGGGATTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacatttagttctaactaatattgaatgctagacaaagtaccaatttttgtttaagcccttgctaaacgtattaggcaacaaccgagaatgtggctta
||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||| |||| | |||||||| ||||| ||||| | |||||||||||||||||| |||  |||||||||| |||||| ||||||||| ||||| |||||||||||   
AGAAATTGGATCTTCTTGTTGGTCTTATGGCAGAGAAAAAAATCAAGGGGTTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCGAGgtgagatttagttttaactgatatttagtgctagacaaagtaccaaatttgatttaagccctcgctaaatgtattaggccacaactgagaatgtggccct
















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|29625520|gb|CB630531.1|CB630531
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|86869314|gb|CI339038.1|CI339038
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|86870250|gb|CI319356.1|CI319356
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29673908|gb|CB670183.1|CB670183
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|86822267|gb|CI357875.1|CI357875
EST:     ATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: ATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29623095|gb|CB628106.1|CB628106
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29623096|gb|CB628107.1|CB628107
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|18386400|gb|BM419598.1|BM419598
EST:     TTGCCATAAGCGAAACAGCATTCAACATTTTCATTNTGAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTGCCATAAGCGAAACAGCATTCAACATTTTCATT-TTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|89190915|gb|CI392768.1|CI392768
EST:     TGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|86870180|gb|CI318094.1|CI318094
EST:     CATTCAACATTTTCAGTTGTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGA-GAAACATA
genomic: CATTCAACATTTTCA-TTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|22307369|gb|BQ908591.1|BQ908591
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29615000|gb|CB620013.1|CB620013
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|88481228|gb|CI418499.1|CI418499
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29625788|gb|CB630799.1|CB630799
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29626294|gb|CB631305.1|CB631305
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29614957|gb|CB619970.1|CB619970
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|22305868|gb|BQ907090.1|BQ907090
EST:     ACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: ACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|22305768|gb|BQ906990.1|BQ906990
EST:     ATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: ATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|22305068|gb|BQ906290.1|BQ906290
EST:     TTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29622940|gb|CB627951.1|CB627951
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29625533|gb|CB630544.1|CB630544
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29679635|gb|CB675910.1|CB675910
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29622491|gb|CB627502.1|CB627502
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29674052|gb|CB670327.1|CB670327
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|29623590|gb|CB628601.1|CB628601
EST:     TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTGCCATAAGCGAAACAGCATTCAACATTTTCATTTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|22306847|gb|BQ908069.1|BQ908069
EST:     TTTAATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: TTTAATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
EST: gi|88490349|gb|CI427621.1|CI427621
EST:     AATGGCATCAAG                         GAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA
genomic: AATGGCATCAAGgtaacattta ... ctaaaaacagGAGGCTCGAAGCAGATCGATTTTTTACAAGCAATTTCAATGAGGAAACATA