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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCTCAAGGTAGCAGCGTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaatgttcactctttctatgatctacaccctctagtctaactatgatattgctctttctaaggtcaaattatatggctgtttttctctttaagc...

Basic information

species Oryza sativa
transcript LOC_Os07g26610.1
intron # 3
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|58603545|gb|CK014073.1|CK014073
EST:     GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAG                         TGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
genomic: GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
EST: gi|58661803|gb|CK050483.1|CK050483
EST:     GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAG                         TGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
genomic: GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
EST: gi|88355792|gb|CI626233.1|CI626233
EST:     GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAG                         TGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
genomic: GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
EST: gi|88372673|gb|CI612601.1|CI612601
EST:     GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAG                         TGATATTCGTGGTGT-GCTGTTGGTGGGG
genomic: GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTGTTGGTGGGG
EST: gi|33678513|gb|CF306752.1|CF306752
EST:     GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAG                         TGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
genomic: GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
EST: gi|33381367|gb|CF196710.1|CF196710
EST:     GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAG                         TGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
genomic: GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCT
EST: gi|88300211|gb|CI582445.1|CI582445
EST:     GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAG                         TGATATTCGTGGTGTTGCTG
genomic: GTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTG

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: 57 (upstream exon), 75 (downstream exon)
Score: 10

CTGCTCAAGGTAGCAGCGTTGTCCCATCCTCTGCGAAAGTTGACTTTTTAAAGCTCCAGAATGGCAGgtataacaat ... tttctcacagTGATATTCGTGGTGTTGCTGTTGGTGGGGTCGAAGGCGAGCCCGTAAATCTCACTGAGCCTGTTACTGAAGCAATAGCTTCTGCATTTGCTGCATGGTTA




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