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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTGCTGTACAGGGACTACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctctcgagttttttttgttgttgacttgttgtatgtaagaggctttcttgatttatttgtgtgatttactgcccctacctgctgttgttaatg...

Basic information

species Oryza sativa
transcript LOC_Os09g19734.2
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|33680951|gb|CF309190.1|CF309190
EST:     AGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: AGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|56157245|gb|D23596.2|D23596
EST:     ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|29634623|gb|CB639632.1|CB639632
EST:     ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|33827852|gb|CF339741.1|CF339741
EST:     ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|29634604|gb|CB639613.1|CB639613
EST:     ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|58587649|gb|CF985957.1|CF985957
EST:     TTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: TTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|33802112|gb|CF326928.1|CF326928
EST:     ACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|163920092|gb|EG709862.1|EG709862
EST:     ACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGT--GATC
genomic: ACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|33827932|gb|CF339781.1|CF339781
EST:     ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|33794658|gb|CF323216.1|CF323216
EST:     ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
EST: gi|33825589|gb|CF338605.1|CF338605
EST:     ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTC                         GCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC
genomic: ACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATC

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: 74 (upstream exon), 75 (downstream exon)
Score: 105

ATCTGCTGTACAGGGACTACCAGACCGACCACAAGTTCACCCTCACCACCTACACCAGCAATGGCGTCgtaagtgctc ... cttgatgcagGCAATCACTGCTACCAGTACAAAGAAGGCTGATCTGATTTTTGGTGAGATCCAATCACAGATAAAGAACAAGAACATCACTGTAGATGTGAAAGCAAACT




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