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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCGCCTGTAGATCGTGTGGATCGTGCTTACCTGCGATGGATAGGGCGAGCGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggcggccggcggcgcgggttgttcttggtttggattttgtccccgattgctgatctgctgattcttgctccctgggttggtgcag

Basic information

species Oryza sativa
transcript LOC_Os04g47580.1
intron # 1
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|88401846|gb|CI591173.1|CI591173
EST:     CGAGAACCGGAGGCTGGCGGGGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGAAATCAACAACCTCGTCGGGGCGC
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
EST: gi|88722849|gb|CI746359.1|CI746359
EST:     CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
EST: gi|58658155|gb|CK046835.1|CK046835
EST:     CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
EST: gi|88721535|gb|CI744834.1|CI744834
EST:     CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTNGGGGCGC
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
EST: gi|86831971|gb|CI305197.1|CI305197
EST:     CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
EST: gi|88406938|gb|CI578466.1|CI578466
EST:     CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
EST: gi|58672181|gb|CK060867.1|CK060867
EST:     GAGAACCGGAGTGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
genomic: GAGAACCGGAG-GCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
EST: gi|88695221|gb|CI739259.1|CI739259
EST:     CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGCTCGGGGCG
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCG-TCGGGGCG
EST: gi|88694046|gb|CI738084.1|CI738084
EST:     CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAG                         AGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC
genomic: CGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGC

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: 70 (upstream exon), 66 (downstream exon)
Score: 9

TCCGCCTGTAGATCGTGTGGATCGTGCTTACCTGCGATGGATAGGGCGAGCGAGAACCGGAGGCTGGCGGCGGTGGGGAAGCCCGTGCCGGGGATCGGAGgtgggtcggc ... gttggtgcagAGATGGGGAACCGGAGGCCGCTCAGGGACATCAACAACCTCGTCGGGGCGCCGCCGCACCCGTCCGCGATCGCCAAGAAGCCGATGCTAGA




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