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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGATCGCCGCCGCCGCCGCCATGGGGGGCGGCTCCACGGCGCCCCTCCTCGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggtcctctactgaccatcgccgagtctatatcgctttgtttgctctggactctggggtgtaacaaattctaccgaatcgagatggtctcatgc...

Basic information

species Oryza sativa
transcript LOC_Os02g50360.1
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|29621716|gb|CB626727.1|CB626727
EST:     CGCGGCCTTCGCTTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCGGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88442914|gb|CI694326.1|CI694326
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88720294|gb|CI743593.1|CI743593
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88315050|gb|CI610109.1|CI610109
EST:     CGCGGGCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88367283|gb|CI564047.1|CI564047
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88336080|gb|CI647274.1|CI647274
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGA
EST: gi|88312657|gb|CI587565.1|CI587565
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAATGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88382727|gb|CI682617.1|CI682617
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88337091|gb|CI628177.1|CI628177
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88588080|gb|CI705873.1|CI705873
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88362169|gb|CI608560.1|CI608560
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88723449|gb|CI746959.1|CI746959
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88408745|gb|CI686255.1|CI686255
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88356217|gb|CI627665.1|CI627665
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88394194|gb|CI684867.1|CI684867
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88430110|gb|CI565123.1|CI565123
EST:     CGCGGCCTTCGCCTGCGTCTTCCTTGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88851911|gb|CI679469.1|CI679469
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88333583|gb|CI656655.1|CI656655
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88583163|gb|CI700628.1|CI700628
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88693611|gb|CI737186.1|CI737186
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|86903907|gb|CI302553.1|CI302553
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88405123|gb|CI685575.1|CI685575
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88352508|gb|CI654333.1|CI654333
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88426827|gb|CI584190.1|CI584190
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88328561|gb|CI676771.1|CI676771
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88582552|gb|CI699970.1|CI699970
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
EST: gi|88592670|gb|CI710791.1|CI710791
EST:     CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCG                         GAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA
genomic: CGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACA

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), 51 (downstream exon)
Score: 16

CAGATCGCCGCCGCCGCCGCCATGGGGGGCGGCTCCACGGCGCCCCTCCTCGCGGCCTTCGCCTGCGTCTTCCTCGCCGTCTTCCCTCCCGTCGCCTCCGgtgagttggt ... ttctttttagGAGATGCTGCAACGTTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACATAAACGTTGAAAGCTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCA




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