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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgttgatgattttgtagcacaatttgattcactttcatatttgaattgcatcccagcttaaatattgtcttatatgttgtgcagttatgctgttgttggttaatacttcacgttggtctttctttaaaataagttactatctgtgtaacattagtttcattttatgttcagGTATTTCTGTACGAGTAGTGACTAGACCTGGTTCTCAATTACTAGGGATAAATGGACGGGATGATGGTCCACTG

Basic information

species Oryza sativa
transcript LOC_Os05g03430.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03430.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G455664_T01 (Zea mays), 3'ss of exon 9
gtattgttgatgattttgtagcacaatttgattcactttcatatttgaattgcatcccagcttaaatattgtcttatatgttgtgcagttatgctgttgttggttaatacttcacgttggtctttctttaaaat-aagttactatctgtgtaacattagtttcattttatgttcagGTATTTCTGTACGAGTAGTGACTAGACCTGGTTCTCAATTACTAGGGATAAATGGACGGGATGATGGTCCACTG
||||| |     | ||| | | | || |||  |         |||| ||| ||||    ||| |||  |||   ||||||||||  |  | |||  ||  | || |    |  ||  || | ||| | | |||| |||  | |  | |||| | |||   |||  ||  ||| |||||||| ||||||||||| |||| || ||||||||||| |||||||||||||||||||| |||||||| ||||||
gtatt-tcataaaatttattgtataacttggatt-------catttaaat-gcatttgggctcaaaacttggtgtatatgttgtatacctgtgccatt--tagt-ataggtctacagtgatatttttatgaaattaagggattgccagtgtgatatttagttctgtt--tgtccagGTATTCCTGTACGAGTAATGACCAGGCCTGGTTCTCAGTTACTAGGGATAAATGGACGTGATGATGGGCCACTG

upper sequence: LOC_Os05g03430.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G155123_T01 (Zea mays), 3'ss of exon 9
gtattgttgatgattttgtagcacaatttgattcactttcatatttgaattgcatcccagcttaaatattgtcttatatgttgtgcagttatgctgttgttggttaatac---ttcacgttgg--tctttctttaaaataagttactatctgtgtaacattagtttcattttatgttcagGTATTTCTGTACGAGTAGTGACTAGACCTGGTTCTCAATTACTAGGGATAAATGGACGGGATGATGGTCCACTG
||| |||| |  ||||| | | |||| |||  |        |  || || |||||    ||  |||| ||| |||||||| |||  || ||   | |   ||    ||||   || |  ||    || | ||| ||| ||||  | |  | || | | |||  ||||  ||  |||||||||||| ||||||||||| |||| || || |||||||| ||||||||||||||||| ||||||||||| ||||||
gtaatgttta-aattttcttgtacaacttggat--------ttattaaaatgcattgtggcacaaatcttggcttatatgctgtatagataca-tatatctgagccatacaagtttaatttacattcatacttgaaattaagggattgccagtctgatatttatttctgtt--tgttcagGTATTCCTGTACGAGTAATGACCAGGCCCGGTTCTCAGTTACTAGGGATAAATGGGCGGGATGATGGGCCACTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttctttaaaataagttactatctgtgtaacattagtttcattttatgttcagGTATTTCTGTACGAGTAGTGACTAGACCTGGTTCTCAATTACTAGGGATAAATGGACGGGATGATGGTCCACTG
                          gtgtaac  putative branch site (score: 3)
                                      tttcatttt  putative PPT
      tttaaaataagttact  TA-rich tract