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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggaaactatacctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT

Basic information

species Glycine max
transcript GLYMA04G01240.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os11g29390.1 (Oryza sativa), 3'ss of exon 7
gtagggaaactatacctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
    | ||  | | |  | | |    |   | ||| | | | |  ||||  ||   |   | | |   | || |   ||      ||     ||  | | | |||||||| |||||||||  ||||||  | ||| |||| |||||||||||  | ||||| ||| ||||||| ||| |||||||||| ||| |||||||||| 
----gtaagtttttc--tctcgcccctacatacctatcgatgtaccaatctatctgtccatctaggtct-ctaaggactaag---gactaactatttgtaacagATATACCGACATGCATGCTGACTATACTGGTAAAGGCTTTGATCAGCTAATGGATGTGATTGACAAGATCAAGAATAATCCTGACGATAGGCGAATTATC

upper sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os12g26060.1 (Oryza sativa), 3'ss of exon 5
gtagggaaactatac---ctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
     |||||| | |   || | | | | | | |  || |   |||| |  ||  ||  | | | ||      ||  | |||   |||  ||    | ||||| |||||||||||||||||||  |||||||   ||  |||| ||||||||| |  | ||||| ||| ||||||| ||| ||||||| |||||| |  |||| |||
actttgaaactttcctctctctctctctctctctctctctccatatttccttaactttatctatctga-----ctagattctaatttccgtgaa--atattttgtagATATACTGACATGCATGCTGACTACGTGGGAAAAGGTTTTGATCAGTTAATGGATGTCATTGACAAGATCAAGAATAATCCCGATGATAGAAGAATCATT

upper sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G139880_T01 (Zea mays), 3'ss of exon 6
gtagggaaactatacctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
            ||   ||   ||  |||  |   | || |||         || | ||||      || || |    |  | | ||      | || | | ||||||||||||||||||  ||||||  | ||  |||| |||||||||||  | ||||| ||| ||||||| ||| | ||||||||||| || ||||| |||
-----------gtaagcttacattcctttccttgagctg-tatctt------ttttcttgttcatgttttctga----taaagttgac-----atatctgacagATATACTGACATGCATGCTGACTATACTGGAAAAGGCTTTGATCAGCTAATGGATGTGATTGACAAGATTAAGAACAATCCTGATGACCGCCGAATAATT

upper sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
gtagggaaactatacctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
||  | ||  | |   |   | | ||  ||||    |   | || | || ||||  |||  ||| ||     || || | | ||            ||||| || || || || ||||||  ||| ||  | |||||||| |||||||| ||| ||||||| ||| |||| || ||| | ||||||||||||||||| ||||| 
gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaa-----catctttctctt-----------gttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA

upper sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G34570.1 (Arabidopsis thaliana), 3'ss of exon 9
gtagggaaactatacctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
||  | |   | |  ||| |   ||     || |||  | | |  ||| | |   || ||||| ||        ||  ||| |||      |  |  | || || || || || ||||||  ||| ||  | || ||||| ||||||||||| |||||||| ||||||||||| ||| | |||||||||||||| || ||||| 
gtcagtagcttctctcttatctcttgacactttctga-gttttggcaaaacagatttctgtgtcgag-------acattttgttca-----tctctctctacagGTACACAGATATGCATGCTGATTATACTGGCCAAGGATTTGATCAGCTCTTAGATGTAATTAACAAGATCAAGAACAATCCTGATGATCGACGGATTATA

upper sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 8
---------------gtagggaaactatacctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgcct-tacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
                    |||| | ||  |  | |  | | |||| ||    |||        | ||  |    || |  || ||| | | || |     |||   || |||||| || |||| ||||||||||  ||||||  | || ||||| ||||||||| | |||||||||||||||||||| ||| |||||||  ||||||| || ||||| 
gttcgtggattttattctttgaaagtttatgtggtggactctatttttct-cgagtaaggattctgttttctcgaggtagtttttctccagttttaacctattgctcatatattttacagCTATATTGACATGCATGCTGACTATACTGGCCAAGGATTTGATCAGTTGTTAGATGTTATTAACAAGATCAAGAATAATCCGAATGATCGACGGATTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
                                       gccttac  putative branch site (score: 3)
                                          ttacattttata  TA-rich tract