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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTTAACCCGCAATGGTCTGGAATGTGCTGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacagtcctacatttgtaatcctgcataattttgttctgtggcataattgatctgctcttcttattttcttattttgctctgttttgttttcag

Basic information

species Oryza sativa
transcript LOC_Os07g47530.2
intron # 18
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|33797016|gb|CF324371.1|CF324371
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
EST: gi|58692536|gb|CK081223.1|CK081223
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATCAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
EST: gi|58690470|gb|CK079157.1|CK079157
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
EST: gi|29664460|gb|CB660735.1|CB660735
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
EST: gi|33675839|gb|CF304078.1|CF304078
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
EST: gi|33675419|gb|CF303658.1|CF303658
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
EST: gi|58660377|gb|CK049057.1|CK049057
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
EST: gi|33676430|gb|CF304669.1|CF304669
EST:     TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAAT                         GCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA
genomic: TGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCA

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), 74 (downstream exon)
Score: 38

TTCTTAACCCGCAATGGTCTGGAATGTGCTGACATAGAGACATCAGCATGTGTTAAAGATCGAATCCTTACAAATGAATgtgagtacag ... ttgttttcagGCGTCGATAAAGTCGTTGGTTATGCTTTGAGTCATCAATTTAAACATAGCACAATCCCAACTCGTGAAAATGATGGATTACTTGCCCTTTCTGGTGAAAG




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