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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtctcacaatactcaaacctactactgctagtgctacctaaatatgcagtaatttcagttgaatttcgcttgaataattttgctgcagAATCAATTCGCGACGGTGTTCTCGAGCATCGTGTCGAGAGCGTCCACGCACGAGGTGTTGTCCACAGGCGTGGCAGGCAACTACAATGGTGCACTGCAAG

Basic information

species Oryza sativa
transcript LOC_Os08g08820.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g08820.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G130442_T02 (Zea mays), 3'ss of exon 4
----------------------gtcagtctcacaatactcaaacctactact-gctagtgctacctaaatatgcagtaatttcagttgaatttcgcttgaataattttgctgcagAATCAATTCGCGACGGTGTTCTCGAGCATCGTGTCGAGAGCGTCCACGCACGAGGTGTTGTCCACAGGCGTGGCAGGCAACTACAATGGTGCACTGCAAG
                      | | |  |  |   |   |    | || || ||   || |   |  || ||  |     ||| |      ||   ||  |   ||   ||||||| | ||||||| | ||||||||||||||||||||||| || ||||||||||||||| |||| || || |||||||| | ||||||||||||| | ||||
gtcagtgacggactgattgatggacgggtttccttgatcgatctatgctgcttgccgatgatcgatccatgtgacgactcatcaataattaatcatctgcgttgcttgcttgcagAACCGATTCGCGGCAGTGTTCTCGAGCATCGTGTCGAGGGCTTCCACGCACGAGGTGCTGTCAACTGGTGTGGCAGGGAGCTACAATGGTGCATTACAAG

upper sequence: LOC_Os08g08820.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G118063_T03 (Zea mays), 3'ss of exon 5
-----------------------gtca-gtctcacaatactcaaacctactactgctagtgctacctaaatatgca-gtaatttcagttgaat--ttcgcttgaataattttgc-----tgcagAATCAATTCGCGACGGTGTTCTCGAGCATCGTGTCGAGAGCGTCCACGCACGAGGTGTTGTCCACAGGCGTGGCAGGCAACTACAATGGTGCACTGCAAG
                       || | ||       |  |||     |    |  |  || |  ||   | |||  |    | ||  ||| |  |||       |  || |||     ||||||| | ||| ||  | |||||||| |||||||||||||| || || ||||||||||||||||| || || |||||||| | ||||||||||||| ||||||
gtcagtgacgcacactggtggtggttacgttgttgggttttcagctgaatggattttcttggtctctctctctgcttgctgatccatgtgattaattcatcaatctgcttctgcgttcatgcagAACCGATTTGCTGCAGTGTTCTCAAGCATCGTGTCGAGGGCTTCTACGCACGAGGTGTTGTCAACCGGTGTGGCAGGGAGCTACAATGGTGCATTGCAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacctaaatatgcagtaatttcagttgaatttcgcttgaataattttgctgcagAATCAATTCGCGACGGTGTTCTCGAGCATCGTGTCGAGAGCGTCCACGCACGAGGTGTTGTCCACAGGCGTGGCAGGCAACTACAATGGTGCACTGCAAG
  acctaaa  putative branch site (score: 3)
                                            ttttgct  putative PPT
                                    ttgaataatttt  TA-rich tract