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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgaatctaatctgttaattattggtaatcttctgtagaactgataggaacttgcagtaccagatagataactgaggcaattccttacattatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAAGGATCCAATGCAAGCGCAAGTACTAAGCGGTCTCATCCTCTCAAATTGA

Basic information

species Oryza sativa
transcript LOC_Os08g31840.2
intron # 7
splice site 3'
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|88295035|gb|CI522989.1|CI522989
EST:     AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAG                         GTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
genomic: AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAGgtgatgagct ... ttatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
EST: gi|86883180|gb|CI328639.1|CI328639
EST:     AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAG                         GTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
genomic: AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAGgtgatgagct ... ttatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
EST: gi|325493709|gb|JG458233.1|JG458233
EST:     AAGAGGCAACTGATCCTGATGTATTATTGCCAATTGCCTTCACATTCAAG                         GTGTCTAGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
genomic: AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAGgtgatgagct ... ttatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
EST: gi|88557068|gb|CI487446.1|CI487446
EST:     AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAG                         GTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
genomic: AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAGgtgatgagct ... ttatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
EST: gi|88548655|gb|CI476470.1|CI476470
EST:     AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAG                         GTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
genomic: AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAGgtgatgagct ... ttatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
EST: gi|88528600|gb|CI456848.1|CI456848
EST:     AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAG                         GTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA
genomic: AAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAGgtgatgagct ... ttatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAA

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: 75 (upstream exon), 30 (downstream exon)
Score: 3

GTCAAATTGCCTTTCGAGAAACTTCTACATGCTTTCAGAAACTTCCCAGAAGAGGCAACTGATCCTGATGTACTATTGCCAATTGCCTTCACATTCAAGgtgatgagct ... ttatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAAGGATCCAATGCAAGCGCAAGTACTAAGCGGTCTCATCCTCTCAAATTGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggaacttgcagtaccagatagataactgaggcaattccttacattatttacagGTGTCTGGTCGTCTTGAAGAGCTGGAGAAAGAGTATCAGAAAAAATTAGAAGGATCCAATGCAAGCGCAAGTACTAAGCGGTCTCATCCTCTCAAATTGA
                                     tccttac  putative branch site (score: 3)
                                        ttacattatttaca  TA-rich tract