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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtttcgtaacactgagctaatgtatatttttttcttttcttatatacattaatttgcttattgttttcttttagGCATGGAGTGTGCCAGAAGTGTTGCGGCCACTTTATGAATCATCCAAGGTGGTTGCTCAGAAAATGACAATTGCA

Basic information

species Glycine max
transcript GLYMA11G20520.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G20520.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os10g33960.2 (Oryza sativa), 3'ss of exon 8
-------------gttttgt-ttcgtaacactgagctaa--tgtatatttttttcttttcttatatacattaatttgcttat-tgttttcttttagGCATGGAGTGTGCCAGAAGTGTTGCGGCCACTTTATGAATCATCCAAGGTGGTTGCTCAGAAAATGACAATTGCA
             ||| ||  ||| |   | | || |    | |  ||||   || ||  || | |  |||||||| ||||  |  | | ||  |||| |||||||| ||||||||| | |||||||| || || ||||| | ||| ||||||||||||||||| | ||||
gtgtgatcttcaagttctgcattctttctagttagatgtgctctgcatttgagtcattatttcttt-tattaatttacttagattctattttacagGCTTGGAGTGTTCCAGAAGTGCTTCGGCCACTCTACGAGTCATCTAGGGTAGTTGCTCAGAAAATGACTACTGCA

upper sequence: GLYMA11G20520.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g01890.1 (Oryza sativa), 3'ss of exon 9
---------------------------gttttgtttcgtaacactgagctaatgtatatttttttcttttcttatatacattaatttgcttattgttttcttttagGCATGGAGTGTGCCAGAAGTGTTGCGGCCACTTTATGAATCATCCAAGGTGGTTGCTCAGAAAATGACAATTGCA
                               |||||  |  |  |      | |   |||||| | |  | | | |   || |      ||  | |  ||||| ||||||||||||| || || ||| | |||||||| |||||||| || | ||| || |||||||||||||| | ||| 
gtatttttcacacttttgtacagttgaaccatgttttttgtcctttgatgtaggaccatttttgtatcctgtcaaactaataatacaatttggtttaatctttcagGCATGGAGTGTTCCTGAGGTGCTTCGGCCACTCTATGAATCTTCAAGGGTAGTCGCTCAGAAAATGACTACTGCG

upper sequence: GLYMA11G20520.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 8
gttttgtttcgtaacactgagctaatgtatatttttttcttttcttatatacattaatttgcttattgttttcttttagGCATGGAGTGTGCCAGAAGTGTTGCGGCCACTTTATGAATCATCCAAGGTGGTTGCTCAGAAAATGACAATTGCA
  |||| ||  |  || |  |||  |   ||  ||||||||   |   |     | |||| ||||     |  ||  ||||||||||||||||||| ||| |||| |||||||||||||| || |  || || |||||||||||||| ||||||
-gtttgatttttggcagttggcttct---tagatttttcttgcttggcaatggcttatttccttaca---tctttgcagGCATGGAGTGTGCCAGAGGTGCTGCGACCACTTTATGAATCTTCAAGAGTTGTAGCTCAGAAAATGACTATTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtatatttttttcttttcttatatacattaatttgcttattgttttcttttagGCATGGAGTGTGCCAGAAGTGTTGCGGCCACTTTATGAATCATCCAAGGTGGTTGCTCAGAAAATGACAATTGCA
                           cattaat  putative branch site (score: 3)
                                     cttattgttttctttt  putative PPT
     tatttttttcttttct  TA-rich tract