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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtccttttgctaatgccttccaaagatacatgtacaaattttggttttagatcttgtcaaatctattactcctatttgatgtattttctgttgcagGTTCGAATCTTCTCATAGACAATGAAGGTAATCTGAAGCTTGCTGATTTTGGACTGGCACGGTCATTTTCTAACGAGCACAATGCAAATCTTACAAATCG

Basic information

species Glycine max
transcript GLYMA20G10960.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G10960.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g32360.1 (Oryza sativa), 3'ss of exon 6
----gtgtccttttgct--aatgccttccaaagatacatgtacaaattttggttttagatcttgtcaaatctattactcctatttgatgtattttctgttgcagGTTCGAATCTTCTCATAGACAATGAAGGTAATCTGAAGCTTGCTGATTTTGGACTGGCACGGTCATTTTCTAACGAGCACAATGCAAATCTTACAAATCG
        |  |  |||    | | ||  |   || |   ||   ||  || ||||     || |    |  | || ||||  || |   || | || ||||||| || |||||  | |||||||||||||||||  ||||||| ||||||||||| || ||| | |||||||| || || || || | |||||| || |||||
gtatacaacactaagcttcgttacattttattcat-ctcatagtgatcatgattttgtggtttttatgctaaaatattcctgattcaaa-atctactcttgcagGATCCAATCTCTTGATAGACAATGAAGGTAACTTGAAGCTGGCTGATTTTGGCCTAGCAAGATCATTTTCAAATGATCATAACGGAAATCTCACTAATCG

upper sequence: GLYMA20G10960.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g72790.1 (Oryza sativa), 3'ss of exon 6
gtgtccttttgctaatgccttccaaagatacatgtacaaattttggttttagatcttgtcaaatctattactcctatttgatgt--attttctgttgcagGTTCGAATCTTCTCATAGACAATGAAGGTAATCTGAAGCTTGCTGATTTTGGACTGGCACGGTCATTTTCTAACGAGCACAATGCAAATCTTACAAATCG
  || | ||   ||  |   ||      |   |    |  | |||  | || |||   |     |    |||  ||| |  | |   || | | ||||||| || || ||  | ||||||||||| |||||  ||||||||||||||||||| || ||| | ||||| || |  || ||||||| |||  | ||||| ||
--gttccttctttagagatatcttg---tttgttcctacttcttgcatgtatatcagttttttccctgaactaatatgttgtatccgttctttcttgcagGATCTAACCTCTTGATAGACAATGAGGGTAACTTGAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCAAGTGACCACAATGGAAACTTAACAAACCG

upper sequence: GLYMA20G10960.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 6
gtgtcctt-ttgctaatgccttc-caaagatacatgta-----caaattttggttttagatcttgtcaaatctattactcctatttgatgtattttctgttgcagGTTCGAATCTTCTCATAGACAATGAAGGTAATCTGAAGCTTGCTGATTTTGGACTGGCACGGTCATTTTCTAACGAGCACAATGCAAATCTTACAAATCG
  ||| |   ||| ||   ||   |  || |     |      |  |||  | |||||  | ||||  |    |       ||||||  ||| ||| | ||| ||| || || ||| | ||||||||||| |||||  ||||||||||||||||||| || ||| | ||||| || |  || |||||||  || ||||| || ||
--gtcttagctgcaaacatctctgctgagtttttcttgtcttccttattcggtttttatgttttgttgagctaacatactgtatttg--gtactttgt-ttgtagGATCTAACCTTTTGATAGACAATGAGGGTAACTTGAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCGAGTGATCACAATGGCAACCTTACTAACCG

upper sequence: GLYMA20G10960.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0009g01800.t01 (Vitis vinifera), 3'ss of exon 7
gtgtccttttgctaatgccttccaaagatacatgtacaaat-tttggttttagatcttgtcaaatctattactcctatttgatgtattttctgttgcagGTTCGAATCTTCTCATAGACAATGAAGGTAATCTGAAGCTTGCTGATTTTGGACTGGCACGGTCATTTTCTAACGAGCACAATGCAAATCTTACAAATCG
            | ||  ||    |||| |  | |     | |||| ||||   | || | ||      ||  |  |  || | ||| ||    | |||| || |||||||| ||||||||||| || ||| |||||||||| |||||||| || || ||||||||||| || || |||||||  ||||||||||||||
-----------gttataact----aagacaagttttttgttatttgattttcttttttattaatgaggctaagctaagctgttctatattt--gtacagGCTCTAATCTTCTAATAGACAATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttttagatcttgtcaaatctattactcctatttgatgtattttctgttgcagGTTCGAATCTTCTCATAGACAATGAAGGTAATCTGAAGCTTGCTGATTTTGGACTGGCACGGTCATTTTCTAACGAGCACAATGCAAATCTTACAAATCG
                                atttgat  putative branch site (score: 5)
                                          ttttctgtt  putative PPT
                               tatttgatgtatttt  TA-rich tract