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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACCCTTCCTACTGGTAATATGAATACTAGGCTACCAGGGTCTCCTGGTATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAGgtaaatgatcctattttccttctctagcttataaaattaattttacattttaatgttcgtttctgtaaaatttttgttgcag

Basic information

species Oryza sativa
transcript LOC_Os08g08000.1
intron # 7
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|58656924|gb|CK045604.1|CK045604
EST:     ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAG                         GGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
genomic: ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAGgtaaatgatc ... tttgttgcagGGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
EST: gi|58672268|gb|CK060954.1|CK060954
EST:     ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAG                         GGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
genomic: ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAGgtaaatgatc ... tttgttgcagGGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
EST: gi|58673489|gb|CK062175.1|CK062175
EST:     ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAG                         GGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
genomic: ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAGgtaaatgatc ... tttgttgcagGGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
EST: gi|29644348|gb|CB649355.1|CB649355
EST:     ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAG                         GGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
genomic: ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAGgtaaatgatc ... tttgttgcagGGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
EST: gi|29682147|gb|CB678422.1|CB678422
EST:     ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAG                         GGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA
genomic: ATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAGgtaaatgatc ... tttgttgcagGGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGA

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: 59 (upstream exon), 52 (downstream exon)
Score: 20

CCACCCTTCCTACTGGTAATATGAATACTAGGCTACCAGGGTCTCCTGGTATGGTTTTAGGCAATACTTTGCCATCACCTTCAACACCAAATACTCCTAGgtaaatgatc ... tttgttgcagGGATTCTCAGAGGTACGGAATGCCTAGACCTACCTCTCTGCAGGGTGATGAGCAACAAAGAATCCAGTACAATCAGATGCTCAACAGCAGAAGTCTTCAG




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