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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGATTTCCGCCGAATTTCGCTCCGCTCCAGCAATGGGCGAATTGGGTGCTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgtttttattctcttcttgttttttgttctttactggtgaggtggggatgagttcttgattgggtttttttttttcccttgtgggtgcag

Basic information

species Oryza sativa
transcript LOC_Os11g11050.1
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|88581653|gb|CI698853.1|CI698853
EST:     CTCTCCAGTCCATCGTCTACCACCGNGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|88388179|gb|CI627718.1|CI627718
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|88730151|gb|CI753766.1|CI753766
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|88579065|gb|CI688033.1|CI688033
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|33680908|gb|CF309147.1|CF309147
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|88317043|gb|CI625680.1|CI625680
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|2427651|gb|C72114.1|C72114
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|88742883|gb|CI766391.1|CI766391
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|88346929|gb|CI628599.1|CI628599
EST:     CTCTCCAGTCCATCGTCTA-CACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
EST: gi|88720752|gb|CI744051.1|CI744051
EST:     CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAG                         AGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT
genomic: CTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGAT

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), 67 (downstream exon)
Score: 19

CTCGATTTCCGCCGAATTTCGCTCCGCTCCAGCAATGGGCGAATTGGGTGCTCTCCAGTCCATCGTCTACCACCGCGGATCGCTCCGCCTGCTTGATCAGgttcgttttt ... gtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGATGGATG




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