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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTACCCTTCCTCCACCACTGCCAGACTTTGTTGAACCGTCTAAGACAAAAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggtatcactatatgccttcaggtgttttaatagattctcttttttctgcatcagcatgaaaagtaaattttttaggacttatctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g53700.1
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|88396304|gb|CI598416.1|CI598416
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGC
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGC
EST: gi|88426420|gb|CI576662.1|CI576662
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACT
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACT
EST: gi|33684443|gb|CF312682.1|CF312682
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88370337|gb|CI587727.1|CI587727
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGAG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAA
EST: gi|117222072|gb|CT852607.1|CT852607
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88411046|gb|CI606265.1|CI606265
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTG
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTG
EST: gi|88364211|gb|CI612160.1|CI612160
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88392412|gb|CI612886.1|CI612886
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|33678525|gb|CF306764.1|CF306764
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|33795923|gb|CF323829.1|CF323829
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|27334460|gb|CA882911.1|CA882911
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88359996|gb|CI608510.1|CI608510
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGGCATCTGTGGGACTGTATATTGAC
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAG-CATCTGTGGGACTGTATATTGAC
EST: gi|33681307|gb|CF309546.1|CF309546
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88364616|gb|CI612431.1|CI612431
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGGTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGG
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGG
EST: gi|88430305|gb|CI567324.1|CI567324
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGGTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|163919795|gb|EG711485.1|EG711485
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACT
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACT
EST: gi|163922995|gb|EG712768.1|EG712768
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88294602|gb|CI602322.1|CI602322
EST:     AAGTCAC-ACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATA
EST: gi|33795511|gb|CF323625.1|CF323625
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88402185|gb|CI615028.1|CI615028
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|88364158|gb|CI610502.1|CI610502
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|33810480|gb|CF331128.1|CF331128
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|33677885|gb|CF306124.1|CF306124
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAA
EST: gi|40490205|gb|BX899810.1|BX899810
EST:     AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTG                         AGTCCAGCAGCATCTGTGGGACTTGTATATTGACTGTGGTTCAATATATGA
genomic: AAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACT-GTATATTGACTGTGGTTCAATATATGA

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: 68 (upstream exon), 50 (downstream exon)
Score: 48

TATTACCCTTCCTCCACCACTGCCAGACTTTGTTGAACCGTCTAAGACAAAAGTCACCACTCTCCCGAATGGCATCAAGATTGCTTCAGAAACGTCAGTGgtatgatggt ... ttatctgcagAGTCCAGCAGCATCTGTGGGACTGTATATTGACTGTGGTTCAATATATGAAACACCTGCTTCATCTGGAGCATCACATCTGTTGGAGAGAATGGCGTTCA




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