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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagtgtttcacaatctaactgctgtactgttataataattcattatggtacttacggcttataactttgctggtctcaattggttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g09320.1
intron # 12
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|58656234|gb|CK044914.1|CK044914
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|218490049|gb|FG963619.1|FG963619
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|33676232|gb|CF304471.1|CF304471
EST:     -CTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|29642462|gb|CB647469.1|CB647469
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|218495881|gb|FG947063.1|FG947063
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGG
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTC-AAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGG
EST: gi|29645565|gb|CB650572.1|CB650572
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGC
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGC
EST: gi|86848740|gb|CI294021.1|CI294021
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAG
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAG
EST: gi|33676868|gb|CF305107.1|CF305107
EST:     -CTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|14192240|gb|AU184451.1|AU184451
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58673473|gb|CK062159.1|CK062159
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58670000|gb|CK058686.1|CK058686
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58672496|gb|CK061182.1|CK061182
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58681408|gb|CK070095.1|CK070095
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58585822|gb|CF984130.1|CF984130
EST:     AGGCTGGAACTGGTATTGCAGAACTCATGGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: AGGCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58607251|gb|CK035284.1|CK035284
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATGGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|218502862|gb|FG946696.1|FG946696
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|218499296|gb|FG965743.1|FG965743
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAACAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58665642|gb|CK054328.1|CK054328
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|33676662|gb|CF304901.1|CF304901
EST:     -CTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|8956808|gb|BE230611.1|BE230611
EST:     AGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: AGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
EST: gi|58597534|gb|CK008062.1|CK008062
EST:     GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAG                         ACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA
genomic: GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCA

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: 72 (upstream exon), 73 (downstream exon)
Score: 99

GCTGGAACTGGTATTGCAGAACTCATTGCTCTTGAGATTTCAAAACAGgtaatatagt ... tggttttcagACAAAGGCTCCAATTGAGGAGTGCCGCAAGAAGGTTTGGCTGCTGGATTCAAAG




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