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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACCCTAGTTCCTCTTTGCCTTTCCGCTTCTCCGCGCCCCCCCCCCCCGCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggatcgccgtgggctcgtcgtcttgccgccgttgccgttccggtggtggtggtggtggtggtgctttggattgcgcgcgtgtgtttgaccggggtttttttgtgcctttcgtgcag

Basic information

species Oryza sativa
transcript LOC_Os02g40880.1
intron # 1
splice site 5'
intron type U2

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|33686763|gb|CF315002.1|CF315002
EST:     CCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGG
genomic: CCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTAC-GG
EST: gi|84117072|gb|CD150839.1|CD150839
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|38468828|gb|CF952959.1|CF952959
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|55440181|gb|CV733400.1|CV733400
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|86594583|gb|CI253482.1|CI253482
EST:     CCGCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCNTGGTGAACTACGGC
genomic: CCGCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|55437659|gb|CV732116.1|CV732116
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|163928521|gb|EG711406.1|EG711406
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|88361438|gb|CI605219.1|CI605219
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|88573835|gb|CI665604.1|CI665604
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|38477698|gb|CF961831.1|CF961831
EST:     GCCGCTTCTCCCGACCGCTGCCGCGAGAATG                         CCGTTCAGGGGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|218482405|gb|FG956210.1|FG956210
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|86526197|gb|CI166403.1|CI166403
EST:     CGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: CGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|5005067|gb|AU069684.1|AU069684
EST:     CGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: CGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|58689726|gb|CK078413.1|CK078413
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|86422170|gb|CI059743.1|CI059743
EST:     TCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCNCTGGTGAACTACGGC
genomic: TCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|33690535|gb|CF318774.1|CF318774
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|88353547|gb|CI632938.1|CI632938
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|3761072|gb|C98326.1|C98326
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGNAGATCGGGCGGGTGNCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|87009649|gb|CI310752.1|CI310752
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|58694553|gb|CK083240.1|CK083240
EST:     GCCGCTTCTCCCGACCGCTGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|88210133|gb|CI209982.1|CI209982
EST:     GACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCNCTGGTGAACTACGGC
genomic: GACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|163920470|gb|EG709575.1|EG709575
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|86530699|gb|CI170905.1|CI170905
EST:     ACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCTCTGGTGAACTACGGC
genomic: ACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|58595050|gb|CF993358.1|CF993358
EST:     GCCGCTTCTCCCGACCGCTGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|87030517|gb|CI254946.1|CI254946
EST:     CCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGCCGGGTGGCCCTGGTGAACTACGGC
genomic: CCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|55408286|gb|CV720662.1|CV720662
EST:     CCGCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: CCGCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|25800631|gb|CA756592.1|CA756592
EST:     GCCGCTTCTCCCGACCGCTGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|38474046|gb|CF958178.1|CF958178
EST:     CCCCGCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: CCCCGCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|8335133|gb|BE040117.1|BE040117
EST:     GCCGCTTCTCCCGACCGCTGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|8527837|gb|AU092652.1|AU092652
EST:     CCGCCGCTTCTCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: CCGCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|568014|gb|D38849.1|D38849
EST:     GCCGCTTCTCCCGACCGCCGCCGCGAGAATN                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
EST: gi|55435598|gb|CV730929.1|CV730929
EST:     GCCGCTTCCCCCGACCGCCGCCGCGAGAATG                         CCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC
genomic: GCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 73 (upstream exon), 75 (downstream exon)
Score: 235

GAACCCTAGTTCCTCTTTGCCTTTCCGCTTCTCCGCGCCCCCCCCCCCCGCCGCTTCTCCCGACCGCCGCCGCGAGAATGgtaggtggat ... tttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACC




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