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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtataagtttttacagttgccaacttgccatctgtctaccacggcgacacgttattttgcaaattgtcttctcaataactcaccatttttccttgttagGTTCTTTTGCAATCGGATGTACTCGAAGTGGCTGCAGACATGAGGGAAAGGTTTGATGAATACTCGGATGTGTTTGAGCATGTTGACTGTATTGATAAAG

Basic information

species Oryza sativa
transcript LOC_Os01g35170.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g35170.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G154087_T01 (Zea mays), 3'ss of exon 7
-------tgtataagtttttacagttgccaacttgccatctgtctaccacggcgacacgttattttgcaaattgtcttctcaataactcaccatttttccttgttagGTTCTTTTGCAATCGGATGTACTCGAAGTGGCTGCAGACATGAGGGAAAGGTTTGATGAATACTCGGATGTGTTTGAGCATGTTGACTGTATTGATAAAG
         |   |||||||   | ||   |  | || | |||||| || | | |||| |  |  | ||   | |||||    ||||| |   | | |   |  |||||| |  | ||||| |||||||| |||||  ||| |||||||||||||||||||||||  ||||| | | | || |  |||||| | | | ||||| |||
tgtacatcattctagtttttgatgctgt-gatctcccttgtgtctatcatgtctacacat-gtccttca---tttcttcaagctaactta--gtgtattgatactagGTTTTCATACAATCTGATGTACTGGAAGTATCTGTAGACATGAGGGAAAGGTTTGATGGGTACTCTGGTATTTTGGCACATGTTAATTATGTTGATCAAG

upper sequence: LOC_Os01g35170.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G054378_T03 (Zea mays), 3'ss of exon 7
tgtata----agtttttacagttgccaacttgccatctgtctaccacggcgacacgttattttgcaaattgtcttctcaataactcaccatttt-tccttgttagGTTCTTTTGCAATCGGATGTACTCGAAGTGGCTGCAGACATGAGGGAAAGGTTTGATGAATACTCGGATGTGTTTGAGCATGTTGACTGTATTGATAAAG
|||| |    |||||||   | ||   |    || | |||||| || | |  ||| |  |  | ||   | |||||    |||||   || | | |   |  |||||| |  | ||||| |||||||| ||||| || | |||||||||||||||||||||||  ||||| | | | || |  |||||| | | | | ||| |||
tgtacattctagtttttgatgctgt-gatcccccttgtgtctatcatgtctgcacat-gtccttca---tttcttcaagctaacttctcagtgtattgatactagGTTTTCATACAATCAGATGTACTGGAAGTAGCGGTAGACATGAGGGAAAGGTTTGATGGGTACTCTGGTATTTTGGCACATGTTAATTATGTCGATCAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgacacgttattttgcaaattgtcttctcaataactcaccatttttccttgttagGTTCTTTTGCAATCGGATGTACTCGAAGTGGCTGCAGACATGAGGGAAAGGTTTGATGAATACTCGGATGTGTTTGAGCATGTTGACTGTATTGATAAAG
                                aactcac  putative branch site (score: 2)
                                  ctcaccatttttcctt  CT-rich tract
       ttattttgcaaatt  TA-rich tract