Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttcaattcttttttggtctgcagcttgctatttactcaaatgtctgaaatttccctttttccaatgcag

Basic information

species Oryza sativa
transcript LOC_Os06g46930.1
intron # 2
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|55412128|gb|CV724504.1|CV724504
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|88330769|gb|CI636777.1|CI636777
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCACACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|33815049|gb|CF333389.1|CF333389
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|38474567|gb|CF958700.1|CF958700
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|55412137|gb|CV724513.1|CV724513
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGGGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|58594789|gb|CF993097.1|CF993097
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGAGGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|88352549|gb|CI654374.1|CI654374
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|56157658|gb|C25003.2|C25003
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|88414886|gb|CI601718.1|CI601718
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|33801796|gb|CF326771.1|CF326771
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|86830951|gb|CI295472.1|CI295472
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|38477056|gb|CF961189.1|CF961189
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|3763301|gb|AU030053.1|AU030053
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|88572695|gb|CI664266.1|CI664266
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|55413199|gb|CV725575.1|CV725575
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|88370230|gb|CI585235.1|CI585235
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|163920604|gb|EG710655.1|EG710655
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|88312960|gb|CI592244.1|CI592244
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
EST: gi|88348216|gb|CI637677.1|CI637677
EST:     GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGG                         CTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG
genomic: GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTG

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: 75 (upstream exon), 39 (downstream exon)
Score: 26

GTTAAATTTATGATCAAGACATGCCCAATTCAAATGAGGgtaagtttca ... tccaatgcagCTTAAGCGATGGGAGAGGAAGAAGTGTAAACCAAACAGTCTTCCTGTCCTGCACAAGATGCATGTTAGGATTGGCGATACAGTACAAGTCATTGCAGGCC




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