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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttcttaattcatgatacatgtaatgtttcccaaaatcctcgttaatgttactgcccgtttacagGTTGACCAGCTTGTTCTTGAGGAAGTTGTACGAGAAAGATTCCCAAAACTTG

Basic information

species Oryza sativa
transcript LOC_Os03g17540.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G095868_T03 (Zea mays), 3'ss of exon 7
gtacttcttaattcatg-------atacatgtaatgtttccc---aaaatcctcgttaatgttactgcccgtt-tacagGTTGACCAGCTTGTTCTTGAGGAAGTTGTACGAGAAAGATTCCCAAAACTTG
|||||| | |||| |||       || |||| | | ||  ||    ||    |     ||||| |||| |  |  |||||||||||| || || |||||||| |||||||||||||| ||||| ||| | |
gtacttttgaatttatggatcttgatgcatgcactcttgtccttggaacatttgaactatgttgctgctcaatacacagGTTGACCAACTCGTCCTTGAGGAGGTTGTACGAGAAAGGTTCCCTAAATTGG

upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G154883_T02 (Zea mays), 3'ss of exon 7
-------gtacttcttaattcatgatacatgtaatgtttccca---aaatcctcgttaatgttactgcccgtt-tacagGTTGACCAGCTTGTTCTTGAGGAAGTTGTACGAGAAAGATTCCCAAAACTTG
         |  |  |   || |||| |||| | | ||| |||   ||    |     ||||| |||| |  |  |||||||||||| || || |||||||| |||||||||||||| ||||| ||| | |
gtagttttgaagttgtgggtcttgatgcatgcactcttttccatggaacatttgaactatgttgctgctcaatacacagGTTGACCAACTCGTCCTTGAGGAGGTTGTACGAGAAAGGTTCCCTAAATTGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgatacatgtaatgtttcccaaaatcctcgttaatgttactgcccgtttacagGTTGACCAGCTTGTTCTTGAGGAAGTTGTACGAGAAAGATTCCCAAAACTTG
                              cgttaat  putative branch site (score: 4)
                                            cccgttt  putative PPT
                                ttaatgtta  TA-rich tract