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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACTGCACCAGGTGCTTCAGAAATTAACGgtaagtcttctgcaatgtcaacatcaaggttttttgtgcaagtaattcacatttatgcttctgatcataatttcag

Basic information

species Oryza sativa
transcript LOC_Os02g03580.1
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|29681741|gb|CB678016.1|CB678016
EST:     GGAACTGCACCACGTGCTTCAGAAATTAACG                         GGAACAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
genomic: GGAACTGCACCAGGTGCTTCAGAAATTAACGgtaagtcttc ... ataatttcagGGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
EST: gi|29670500|gb|CB666775.1|CB666775
EST:     GGAACTGCACCAGGTGCTTCAGAAATTAACG                         GGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
genomic: GGAACTGCACCAGGTGCTTCAGAAATTAACGgtaagtcttc ... ataatttcagGGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
EST: gi|32948093|gb|BP184665.1|BP184665
EST:     GGAACTGCACCAGGTGCTTCAGAAATTAACG                         GGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
genomic: GGAACTGCACCAGGTGCTTCAGAAATTAACGgtaagtcttc ... ataatttcagGGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
EST: gi|32948307|gb|BP184879.1|BP184879
EST:     GGAACTGCACCAGGTGCTTCAGAAATTAACG                         GGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
genomic: GGAACTGCACCAGGTGCTTCAGAAATTAACGgtaagtcttc ... ataatttcagGGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
EST: gi|29683126|gb|CB679401.1|CB679401
EST:     GGAACTGCACCAGGTGCTTCAGAAATTAACG                         GGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT
genomic: GGAACTGCACCAGGTGCTTCAGAAATTAACGgtaagtcttc ... ataatttcagGGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCT

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: 35 (upstream exon), 38 (downstream exon)
Score: 12

GGAACTGCACCAGGTGCTTCAGAAATTAACGgtaagtcttc ... ataatttcagGGAAAAATGAGCTTGGCAGAACATCTGGTCCATCTGCCAACGGGATTACCTCCCACAG




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