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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGCCGGCACCGCCCGCTCCACCGCACCCGCGCGCTGCAGCCACCGAGCAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTGgtacgcgccccaagccctcttaccttaccccgacctccgactcgctatccctgcggatttcgatttttcttttttcgctcactcgtatcaccatcgcctcccag

Basic information

species Oryza sativa
transcript LOC_Os01g66730.1
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|29622358|gb|CB627369.1|CB627369
EST:     CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTG                         GTCCCCGGGGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
genomic: CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTGgtacgcgccc ... cgcctcccagGTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
EST: gi|88302557|gb|CI668403.1|CI668403
EST:     CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTG                         GTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
genomic: CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTGgtacgcgccc ... cgcctcccagGTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
EST: gi|29289898|gb|CB483512.1|CB483512
EST:     CGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTG                         GTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
genomic: CGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTGgtacgcgccc ... cgcctcccagGTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
EST: gi|88333983|gb|CI645397.1|CI645397
EST:     CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTG                         GTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
genomic: CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTGgtacgcgccc ... cgcctcccagGTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
EST: gi|29622394|gb|CB627405.1|CB627405
EST:     CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTG                         GTCCCCGGGGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC
genomic: CAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTGgtacgcgccc ... cgcctcccagGTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATC

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), 75 (downstream exon)
Score: 4

TGGAGCCGGCACCGCCCGCTCCACCGCACCCGCGCGCTGCAGCCACCGAGCAATGGAATCGAGGAAGCCGCCACCCTCTGCCCTCGTTGACAACCACGTGgtacgcgccc ... cgcctcccagGTCCCCGGAGACGTCGTCCTCGACCTCACCGAGATGACCAACCAGACCATCAAGCTCGGCGCTGGCCTGCGACAG




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