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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCATATATCTTGCCAAGATGTAGGGCCCAGTGGCCATGCTAGTGAAGCTAACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGGgtaatttgtatacttcagctcatacaagttatgatctaatttgttattgaccaactatctaaatcaatattcactaattaatcaaagttcaatgtgagct...

Basic information

species Oryza sativa
transcript LOC_Os06g06750.1
intron # 7
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|88381482|gb|CI528462.1|CI528462
EST:     AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGG                         GTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA
genomic: AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGGgtaatttgta ... tcccatgcagGTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA
EST: gi|86427923|gb|CI073020.1|CI073020
EST:     AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGG                         GTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA
genomic: AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGGgtaatttgta ... tcccatgcagGTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA
EST: gi|86540381|gb|CI180587.1|CI180587
EST:     AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGG                         GTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA
genomic: AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGGgtaatttgta ... tcccatgcagGTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA
EST: gi|66923828|gb|CX110676.1|CX110676
EST:     AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGG                         GTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA
genomic: AACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGGgtaatttgta ... tcccatgcagGTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACA

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: 58 (upstream exon), 31 (downstream exon)
Score: 6

TTCATATATCTTGCCAAGATGTAGGGCCCAGTGGCCATGCTAGTGAAGCTAACCAAGAGTTTCTCCATCATGCAATTTGTGACCCTTCCCTGCATATAGGgtaatttgta ... tcccatgcagGTATCAAGCTTACATGGATCACCTCAACCAATGAATGAATTGCTTATCACATTAATGGACATCTCCTATGTTGGATGTGGTGTTTGACGTAATGCTCTCT




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