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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCCACCATTCAAGGAATGTGTCTTCTGAAAATCCTCCATCCCATCGGCATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttctccccattcatgttatatgtttccagctaatgctcattgacttaaaaccaacttctgaggtagagtggtttgaaataaatataccatctttctatgtgcag

Basic information

species Oryza sativa
transcript LOC_Os01g59850.1
intron # 6
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|29678119|gb|CB674394.1|CB674394
EST:     ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAG                         AGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
genomic: ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttc ... ctatgtgcagAGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
EST: gi|58665869|gb|CK054555.1|CK054555
EST:     ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAG                         AGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
genomic: ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttc ... ctatgtgcagAGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
EST: gi|29628792|gb|CB633803.1|CB633803
EST:     ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAG                         AGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
genomic: ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttc ... ctatgtgcagAGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
EST: gi|58608380|gb|CK036413.1|CK036413
EST:     ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAG                         AGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
genomic: ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttc ... ctatgtgcagAGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
EST: gi|29623952|gb|CB628963.1|CB628963
EST:     ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAG                         AGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
genomic: ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttc ... ctatgtgcagAGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCT
EST: gi|29624489|gb|CB629500.1|CB629500
EST:     ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAG                         AGAACAGGTTCT
genomic: ATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttc ... ctatgtgcagAGAACAGGTTCT

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: 73 (upstream exon), 71 (downstream exon)
Score: 36

TATCCACCATTCAAGGAATGTGTCTTCTGAAAATCCTCCATCCCATCGGCATCCGAATGCAACTTCTCAAATTGATTTTAATGGAGTCCGACGATCACAGgttaatgttc ... ctatgtgcagAGAACAGGTTCTTCAGGAAGTTTTGGATCATTTGATGGTAGCTCAGCATCTAATAAGTCAGTTGATTCAGGTGCCTTACCTGATGCACCTACAGAAAAGC




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