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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaccgtgtgttattgctaacactctaaaagctttggatatgccggagaattttttcgataccagctcttggctttatgaaaaataaacttatctgatccgtgatttcttcgcagTGGTAACTGTCAATGATTATTTAGCTCAACGTGATGCTGAATGGATGGGACGTGTTCATCGTTTCTTAGGTCTATCTGTTGGCCTTATTCAG

Basic information

species Glycine max
transcript GLYMA06G12320.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G12320.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os11g08980.1 (Oryza sativa), 3'ss of exon 3
gtatgtgaccgtgtgttattgctaacactctaaaagctttggatatgccggagaattttttcgataccagctcttggctttatgaaaaataaacttatctgatccgtgatttcttcgcagTGGTAACTGTCAATGATTATTTAGCTCAACGTGATGCTGAATGGATGGGACGTGTTCATCGTTTCTTAGGTCTATCTGTTGGCCTTATTCAG
      |    ||  ||  | ||  | | || | | | ||  ||||       |  | | |  ||     || ||   || ||  | | |    ||||  |  | |||||   ||  |||| || ||||| ||||||||||| || || || ||||||||||||||||| ||||| ||||||||  | ||||| || || || || ||||||
-----cgcgtatgcattgat-ctgtcgcacttagaacatttcatatt-----aagctctatttat-----cttttcctttcattcagatt----ttataagcactgtgatcctttttcagTTGTGACTGTAAATGATTATTTGGCACAGCGAGATGCTGAATGGATGGGTCGTGTGCATCGTTTTCTTGGTCTTTCCGTGGGTCTAATTCAG

upper sequence: GLYMA06G12320.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G090086_T01 (Zea mays), 3'ss of exon 4
gtatgtgaccgtgtgttattgctaacactctaaaagctttggatatgccggagaattttttcgataccagctcttggctttatgaaaaataaacttatctgatccgtgatt-tcttcgcagTGGTAACTGTCAATGATTATTTAGCTCAACGTGATGCTGAATGGATGGGACGTGTTCATCGTTTCTTAGGTCTATCTGTTGGCCTTATTCAG
                 ||   |  |||    |  | || || | |||   ||     | || ||  | |   |   |  ||| |    |  ||   |  |  | |  ||  | ||  ||||||| ||||| ||||||||||| || || |||||||||||||||||||| ||||||||||| ||  | |||||  ||||||| || ||||||
-----------------atgcattgcacatctagtg-ttaggctctgctcaagttagctctcaatgtctgtctt---ccctattattccttcacaattgagcactgcaatccttttttcagTGGTGACTGTAAATGATTATTTGGCACAGCGTGATGCTGAATGGATGGGTCGTGTTCATCGCTTTCTCGGTCTTACTGTTGGTCTGATTCAG

upper sequence: GLYMA06G12320.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g01860.t01 (Vitis vinifera), 3'ss of exon 5
gtatgtgaccgtgtgttattgctaacactctaaaagctttggatatgccggagaattttttcgataccagctcttggctttatgaaaaataaacttatctgatccgtgatttcttcg--cagTGGTAACTGTCAATGATTATTTAGCTCAACGTGATGCTGAATGGATGGGACGTGTTCATCGTTTCTTAGGTCTATCTGTTGGCCTTATTCAG
                   | | |  |||   |  |||||     || || | || | || |  |      | || | || |       | |  || | || ||  | |||| ||    ||||||||||||||||||||||| | || |||||||||||||| |||||||| ||||||||||||||| ||||||| || || || |||||||||
---------------aatctacaagtacttccag-gcttt-----tgtcgaataaatattgcattgatgcatatttggttaa-atcttgtgatgttgtttgctcaattatttttttcttcagTGGTAACTGTCAATGATTATCTGGCCCAACGTGATGCTGAGTGGATGGGTCGTGTTCATCGTTTCCTAGGTCTTTCAGTGGGTCTTATTCAG

upper sequence: GLYMA06G12320.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ20638 (Selaginella moellendorffii), 3'ss of exon 5
gtatgtgaccgtgtgttattgctaacactctaaaagctttggatatgccggagaattttttcgataccagctcttggct-ttatgaaaaataaacttatctgatccgtgatttcttcgcagTGGTAACTGTCAATGATTATTTAGCTCAACGTGATGCTGAATGGATGGGACGTGTTCATCGTTTCTTAGGTCTATCTGTTGGCCTTATTCAG
                                                          | |   | | |  |||| ||  |||| |       ||| |  | | |     |||| ||  |||| |||||||||| |||||| |||||||||| || || ||||||||||| |   || |    ||||| || || |||||||||||| |  ||
---------------------------------------------------------gtatgacttcaaattcttagcgattataatgttgggactcacttcagctt---tttcgtcctagTGATAACTGTCAACGATTATCTAGCTCAACGAGACGCGGAATGGATGGGCCAAATTTACAAGTTCTTGGGGCTTTCTGTTGGCCTTGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accagctcttggctttatgaaaaataaacttatctgatccgtgatttcttcgcagTGGTAACTGTCAATGATTATTTAGCTCAACGTGATGCTGAATGGATGGGACGTGTTCATCGTTTCTTAGGTCTATCTGTTGGCCTTATTCAG
                               atctgat  putative branch site (score: 4)
                                            tttcttcgc  putative PPT
             tttatgaaaaataaac  TA-rich tract