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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGATCCTGCAAGAGAAGCACTCTATAATTGCAGCGGCAAGATCGATTTTTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtctttcccctttcgattccccctcctctcttccttcccctatcgtcaactagctcgagttgcttgcttgttccctctgctgcttcctctctt...

Basic information

species Oryza sativa
transcript LOC_Os12g02094.1
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|88445523|gb|CI587136.1|CI587136
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTG-GATTT                         T
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcag-
EST: gi|88445523|gb|CI587136.1|CI587136
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTG-GATTT                         T
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcag-
EST: gi|112786000|gb|EE591849.1|EE591849
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCATAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|33799287|gb|CF325500.1|CF325500
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|33682433|gb|CF310672.1|CF310672
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|218503573|gb|FG955591.1|FG955591
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88689898|gb|CI733977.1|CI733977
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88425446|gb|CI567166.1|CI567166
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GT-AATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88689967|gb|CI734046.1|CI734046
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|33685697|gb|CF313936.1|CF313936
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88689163|gb|CI732739.1|CI732739
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88688761|gb|CI732337.1|CI732337
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88311321|gb|CI570395.1|CI570395
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88302529|gb|CI668375.1|CI668375
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|33662366|gb|CF293333.1|CF293333
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|33674096|gb|CF302335.1|CF302335
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|3759063|gb|C96762.1|C96762
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88691138|gb|CI735217.1|CI735217
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|86596763|gb|CI286676.1|CI286676
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88689486|gb|CI733062.1|CI733062
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88691293|gb|CI733877.1|CI733877
EST:     TTTANAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88335964|gb|CI645565.1|CI645565
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88403184|gb|CI570925.1|CI570925
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88329157|gb|CI657232.1|CI657232
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88690026|gb|CI734105.1|CI734105
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88691778|gb|CI733355.1|CI733355
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88363793|gb|CI610553.1|CI610553
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88312110|gb|CI580275.1|CI580275
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88688631|gb|CI732207.1|CI732207
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
EST: gi|88396817|gb|CI577966.1|CI577966
EST:     TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTT                         GTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC
genomic: TTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTC

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: 66 (upstream exon), 75 (downstream exon)
Score: 25

ATCGATCCTGCAAGAGAAGCACTCTATAATTGCAGCGGCAAGATCGATTTTTTACAAACCAACAAAGCAGAAAGGATTCACGCGCCGCCGCTTGCGATTTgtgagttgtc ... tcaattgcagGTCAATTGCAGCCAGAAAGAGGCGATGGATTTCAAAGTCGCTTCCTTTCTCCTACTCCTGTTAATCGTCACCTGCGGAGCTGCTCAAGGTCAAGGCAATG




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