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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCGATGTCATCATTTGATCCTGATCTATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtaccatcaaaagctcattgtccctaattctgccccttgtatattctaatacattatttcctgctacag

Basic information

species Oryza sativa
transcript LOC_Os03g36790.3
intron # 9
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|88218607|gb|CI218456.1|CI218456
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|88833207|gb|CI076690.1|CI076690
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|14192198|gb|AU184409.1|AU184409
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|88469672|gb|CI406943.1|CI406943
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|86434389|gb|CI094732.1|CI094732
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTGTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|27547069|gb|CA765194.2|CA765194
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|86489176|gb|CI131809.1|CI131809
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|86417672|gb|CI031881.1|CI031881
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|89179011|gb|CI043516.1|CI043516
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTNTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|86833244|gb|CI334839.1|CI334839
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|88223214|gb|CI223063.1|CI223063
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|12623092|gb|AU173305.1|AU173305
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|88502849|gb|CI430355.1|CI430355
EST:     ATCATCCGATACTGGATTTCTTTTACTATATG                         TTGACGGATATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: ATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|87012849|gb|CI297076.1|CI297076
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
EST: gi|86869318|gb|CI339042.1|CI339042
EST:     TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATG                         TTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT
genomic: TATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTT

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: 53 (upstream exon), 70 (downstream exon)
Score: 22

GTGGCGATGTCATCATTTGATCCTGATCTATCTCTTGAGGTTTTGGATCATCCAATACTGGATTTCTTTTACTATATGgtaagtacca ... cctgctacagTTAACGGAGATACTGCCCTCTGCTCTTGTCCTATTCATCCTCCGTAAGCTTCCACCGAAACGAGTATCAGCACAGTACCACCCTATTCGTTAGAAGGGCT




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