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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggactaaggataatttggatgaactcgcttcaattgagttgtacagatttactttctttgtctatttttctttttgcttaattttcctcattactttcagCTCAAAGGCAGATAGGGGAGACTGCTCTGAATGAAGTGAGCTCCAGATCTCATCAGATTCTCAGACTG

Basic information

species Glycine max
transcript GLYMA02G05650.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os09g35890.1 (Oryza sativa), 3'ss of exon 6
------gtaaggactaaggataatttggatgaactcgcttcaattgagttgtacagatt-tactttctttgtctatttttctttttgcttaattt-tcctcattacttt--cagCTCAAAGGCAGATAGGGGAGACTGCTCTGAATGAAGTGAGCTCCAGATCTCATCAGATTCTCAGACTG
        | | | |     |  ||      |     | |  ||  ||   ||    |   |  |  ||||| | ||     |  || | | ||| |  |   |  | |  |||||||||| ||||| ||||| |||||| |||||||||  ||||||||||||||||| || |||||  ||
gtgtggaaatgaattttctttctttcttcccagtgaacctggatatagcaataagagtagcagctcatttgtttcttcagtctggtgatcattttgtttttgcttgtgtgacagCTCAAAGACAGATTGGGGAAACTGCTATGAATGAAGCAAGCTCCAGATCTCATCAAATACTCAGGATG

upper sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G015395_T01 (Zea mays), 3'ss of exon 5
--gtaaggactaaggataatttggatgaactcgcttcaattgagttgtacagattt-----actttctttgtctatttttctttttgc-ttaattttcctcattactt--tcagCTCAAAGGCAGATAGGGGAGACTGCTCTGAATGAAGTGAGCTCCAGATCTCATCAGATTCTCAGACTG--------------------------------
  |  |   | |||  |  |||   |   |    | || | ||       |||||      |   |||   |   ||  |  |  |||  ||||  ||    |  ||     ||||||||| ||||| ||||| ||| || ||||||||| ||||||||||||||||||||| |||||| ||                                
gtgctaaaccaaagtttcgttttcttttccgttttccattcgaagaaatgagattgcaagaagcatctcgttaggttacttctagtgcactaatcctctgtgtgcctaggatagCTCAAAGACAGATCGGGGAAACTTCTATGAATGAAGCGAGCTCCAGATCTCATCAGATACTCAGATTGGTTGGCCCTTGTATAGTACTGAATGATGTGCG

upper sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G66310.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaaggactaaggataatttggatgaactcgcttcaattgagttgtacagatttactttctttgtctatttttctttttgcttaattttcctcattactttcagCTCAAAGGCAGATAGGGGAGACTGCTCTGAATGAAGTGAGCTCCAGATCTCATCAGATTCTCAGACTG
                                |  |  | |    ||  | | ||||     ||| |          |||   || | |  | |  | || |||| |||||||| || || ||||| ||||| |||||||| |||||| | |||||||||||| | ||| ||
-------------------------------gtatagataatcaataatggtatactagtgatgttttgcaacaacattgac-aagtgttttaaccatttgcagCACAAAGGCAAATTGGTGAGACAGCTCTAAATGAAGTTAGCTCCCGGTCTCATCAGATTTTGAGATTG

upper sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 5
gtaaggactaaggataatttggatgaactcgcttcaattgagttgtacagatttactttctttgtctatttttctttttgcttaattttcctc--attactttcagCTCAAAGGCAGATAGGGGAGACTGCTCTGAATGAAGTGAGCTCCAGATCTCATCAGATTCTCAGACTG
                                   ||     || |  |      |   || |  ||  |   |       |||| | ||||   | | ||| |||| || || || ||||||||||| || || ||||||   ||||| ||||||||||| ||||||||||||
---------------------------------gtaacaacattctgaaagcagtccagctattactgatgaacgcaaatattaaatatcctgcgaattcttgcagCCCAGAGACAAATAGGGGAGACCGCACTTAATGAAACAAGCTCTAGATCTCATCAAATTCTCAGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttactttctttgtctatttttctttttgcttaattttcctcattactttcagCTCAAAGGCAGATAGGGGAGACTGCTCTGAATGAAGTGAGCTCCAGATCTCATCAGATTCTCAGACTG
                              gcttaat  putative branch site (score: 4)
                   tttttctttttgctta  CT-rich tract
                 tatttttctttttgct  TA-rich tract