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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCACAACGACGAACAACATCTCGCCACGAGGAGGAGGGCGAGAGCTTACACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctctcacggatctctgtgcttggcagcgcggatcgaatttttgtcattacttgtcctaatttttgttccggggtgtctaatttgggtccgatccgatcag

Basic information

species Oryza sativa
transcript LOC_Os12g03060.2
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|29618674|gb|CB623686.1|CB623686
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88415912|gb|CI594024.1|CI594024
EST:     CGAGTCCGAAATCCCCAATCCGGGATCCCCTGCCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: CGAGTCCGAAATCCCCAATCCGGGATCCCCTG-CTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88828089|gb|CI778654.1|CI778654
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|86904894|gb|CI310687.1|CI310687
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|33653554|gb|CF276168.1|CF276168
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|58668824|gb|CK057510.1|CK057510
EST:     CTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: CTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88734622|gb|CI758130.1|CI758130
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88736919|gb|CI760427.1|CI760427
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88718196|gb|CI741706.1|CI741706
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88337398|gb|CI629688.1|CI629688
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|86910179|gb|CI292983.1|CI292983
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|29657293|gb|CB653568.1|CB653568
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|66920771|gb|CX107619.1|CX107619
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88356178|gb|CI627626.1|CI627626
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|25798686|gb|CA754647.1|CA754647
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88433998|gb|CI586876.1|CI586876
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88733588|gb|CI756765.1|CI756765
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88402485|gb|CI596346.1|CI596346
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|29686826|gb|CB683101.1|CB683101
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|58597158|gb|CK007686.1|CK007686
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
EST: gi|88337316|gb|CI629606.1|CI629606
EST:     ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAG                         ATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG
genomic: ACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAG

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), 50 (downstream exon)
Score: 10

TCCACAACGACGAACAACATCTCGCCACGAGGAGGAGGGCGAGAGCTTACACGAGTCCGAAATCCCCAATCCGGGATCCCCTGCTTCTCTTCGCGCCAAGgtaagatctc ... atccgatcagATGGCGGCTGCCTGGGCGGCGGCGGTGGCCGTGATGCTCCTCCTTGCGCAGGTGTCAGCGGCGGCTCCGGTGATGGGGCCTGCCTTCCTCTGGGCGCCCA




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