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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCTGAAGATGCTAACTGCAGGTGGTGCCAATGACGTCTAAACTTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacctgctcgtactgcatgtctactcttataatttcctttctccactctgttggttcaatttggagtatctttgtttcaaaataataataataattcgagtgccttttaacacaaacatgtatgctgcttcatattgcag

Basic information

species Oryza sativa
transcript LOC_Os06g04450.2
intron # 21
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|86598797|gb|CI355414.1|CI355414
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTG                         AAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacc ... catattgcagAAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
EST: gi|88252382|gb|CI350810.1|CI350810
EST:     TTCCCACTTACTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTG                         AAACCCATTGCTACGAACAGGTAGAAACGTTGGATGTCATCAATGACTGGA
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacc ... catattgcagAAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
EST: gi|86602710|gb|CI357074.1|CI357074
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTG                         AAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacc ... catattgcagAAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
EST: gi|88255329|gb|CI354153.1|CI354153
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGG                         T
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTT-Ggtaaggtacc ... catattgcag-
EST: gi|88255329|gb|CI354153.1|CI354153
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGG                         T
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTT-Ggtaaggtacc ... catattgcag-
EST: gi|88255329|gb|CI354153.1|CI354153
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGG                         T
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTT-Ggtaaggtacc ... catattgcag-
EST: gi|88251813|gb|CI349050.1|CI349050
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTG                         AAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacc ... catattgcagAAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
EST: gi|86486040|gb|CI128673.1|CI128673
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTG                         AAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacc ... catattgcagAAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
EST: gi|88257802|gb|CI360388.1|CI360388
EST:     TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTG                         AAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA
genomic: TTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacc ... catattgcagAAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGA

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), 72 (downstream exon)
Score: 12

AAGCTGAAGATGCTAACTGCAGGTGGTGCCAATGACGTCTAAACTTCGCACTTAGTTTGCAAATCAACCGATGAAACAAACTTGTCACCTTTTGgtaaggtacc ... catattgcagAAACCCATTGCTACGAACAGTTAGAAACGTTGGATGTCATCAATGACTGGACTACTCACAATAATTACACGATTTTTTCATAGTCTAGTATATATACCAA




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