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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATATTGAATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatcttttgagttgaactacacttgcattctaagctttacatttagctatatattggaattatactgatttctgttggtgtactgcag

Basic information

species Oryza sativa
transcript LOC_Os12g06020.1
intron # 5
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|29684686|gb|CB680961.1|CB680961
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|29676701|gb|CB672976.1|CB672976
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|33793549|gb|CF322657.1|CF322657
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|58686519|gb|CK075206.1|CK075206
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|29639082|gb|CB644091.1|CB644091
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|29669200|gb|CB665475.1|CB665475
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|33793116|gb|CF322439.1|CF322439
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|58694565|gb|CK083252.1|CK083252
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGG
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGG
EST: gi|29639128|gb|CB644137.1|CB644137
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
EST: gi|58660010|gb|CK048690.1|CK048690
EST:     AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAG                         TGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC
genomic: AATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCC

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), 70 (downstream exon)
Score: 36

GATATTGAATGCTTACGCCAAAGTGCCTCCAAAGCCCAAAGTACCTTCCACAAAAAGgttcccatct ... tgtactgcagTGAGTTTGAGGAATTGGAAGCTGTTCCTACATCCGCTGCTATAGATGGCCCCCTTGAACCTTCTTCGTCGTCCACTGTTCTAGTTTCTAATGCCCCTGAT




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