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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacagtagcaactctaaatcaaccttctctttgttttttcttcctagctagtattttatttactaataagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA

Basic information

species Glycine max
transcript GLYMA16G16060.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g10470.1 (Oryza sativa), 3'ss of exon 4
atacagtagcaactctaaatcaaccttctctttgttttttc-----ttcctagctagtattttatttactaataagtat----tttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
               ||| |   | || |  | || |  ||     |  |     |  |   ||   ||| | ||  ||     |  |   ||||           |||| |||||||||||||| || ||||||| ||||| |||||||||||| || || |||||||| |||||||| || ||||||||    || || || ||  |
--------------gtaagttttcttttttgtggtatcgtcacaaatctcacatgaacacagtacacactgacaatgatggtcctaatacactcttttggtggtcccagAGGAAATGGATTGGGACAAGAATGGAACGGTGACCTTCAAGGAGTTCCTCTTCGCTTTTACTCGTTGGGTGGGGATTGATGATAACGAAGATGACGACGA

upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g40720.1 (Oryza sativa), 3'ss of exon 4
---atacagtagcaactctaaatcaaccttctctttgttttttcttcctagctagtattttatttactaataagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
      |  ||| || ||||||  ||  |     |||    |||     || |      |||  | |||| | |||     || | | |    |   |  |||| |||||||| ||||| || ||||||||||||| |||||| || ||||| ||||| || || || |||||||| ||||| |||  |||||||||  |  |
atttctctatagtaa-tctaaa--aatttctagattgacaattcccatcagtttcagaattaagtcctaacatgtaacactttctttttttgcatggcaccagAGGAAATGGACTGGGACAAGAATGGAATGGTGACCTTCAAAGAATTTCTGTTTGCATTCACTCGCTGGGTTGGGATTGACGAAAATGAGGACGACAATGA

upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
atacagtagcaactctaaatcaaccttc-tctttgttttttcttcctagctagtattttatttactaa---taagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
    ||||  ||  ||    ||  | |  |   ||||  |  ||   | || |  |   || | |  |         |||   ||||| | ||     ||  ||| |||||||| ||||| || || ||||||||||  ||||||||||| || ||||| || || || ||||| ||||||||||||  |||||| || ||  |
--gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcact--agAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA

upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G142693_T02 (Zea mays), 3'ss of exon 4
-----atacagtagcaactctaaatcaaccttctctttgttttttcttcctagctagtattttatttactaataagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
      |||  |  |     ||   |       |    | ||    | ||| | ||   || ||| |         |||||   |   |  |  ||    | |||| |||||||||||||| || ||||| |  |||| ||||||||| || || ||||||||||| || ||||| || || ||| | |  || || || ||  |
cgtcggtacgttttccttcttatgccctgtgggtacccgattgccatccctggatatgtttatatgtttgccctgatattt-actactttggtgaa----tacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA

upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G26470.1 (Arabidopsis thaliana), 3'ss of exon 4
atacagtagcaactctaaatcaaccttctctttgttttttcttcctagctagtatt-ttatttactaa--taagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
                   | |  |||    |   |   ||||| |  | ||  || || || ||| |   ||| || ||| |||   | |     |||||||| |||||||| ||||| || || ||||||||||||||||| |||||||| || || ||||| |  |||||||| || |||||   ||| || || ||| |
-----------------gtttattcttaaactccctccctcttcttctcaagctttcttcttcactgaaccaagaatattgattttgattcctgtgtctgcagAGGAAATGGACTGGGACAAGAACGGAATGGTGAACTTCAAAGAGTTTCTCTTCGCATTTACGCAGTGGGTTGGGATAGATGAGAATGAAGAAGAAGAAGA

upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
atacagtagcaactctaaatcaaccttctctttgttttttcttcctagctagtattttatttactaataag-tattttgttt----tctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
       || |    |   |  |   | |  |  |||  ||   |  |||   ||||| ||   ||||||  |||||   ||    |||      | |  |||||| || |||||||||||||||||||||||||||||||||||||||||||| |||||||| || ||||||||||| ||||| ||  ||||||| || ||| |
---tgccagtaga--tggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA

upper sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S197_126V6.1 (Physcomitrella patens), 3'ss of exon 3
-------atacagtagcaactctaaatcaaccttctctttgttttttc-----ttcctagctagtattttatttactaataagtattttgttttctc------tgcaaaattc------tgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
       |  |  |  || |||    |||  | ||   || ||| | |     ||   |  |   |||   ||| ||  ||| | |     |  ||       ||| ||   |      |||||| |||||||||||||||||| | || ||| | |  |||||||||||| |||| ||||||||    ||||| ||| ||||  | |  || || ||   |  
gtatgttactctttcccacctcactgtcatgcatcaaattatttctgcaaccgttttcaattgccattgcctttcctg-taaatgtgacactgactaaacgaatgcgaaccccaacatgtgcagAGGAAATGGATTGGGATAAAGACGGCATGATCACATTCAAGGAGTTTTTATTCGCTTTTACGGACTGGGTAGGACTTGAGAATGACGAAGAAGAAACAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctagtattttatttactaataagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
                tactaat  putative branch site (score: 1)
     agtattttatttacta  TA-rich tract