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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcactgatactgtggaagaaactgctataaattagtgctttcttagcctaaatagtatgtgtgactgtcctttttctttttttcctccttattattcagGAATACAATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGATGGGAAAAGTTACAGTACAAATTTGGCATTCACTCCACCTGAATATCTGA

Basic information

species Glycine max
transcript GLYMA08G01730.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 5
ggcactgatactgtggaagaaactgctataaattagtgctttcttagcctaaatagtatgtgtgactgtcctttttctttttttcctccttattattcagGAATACAATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGATGGGAAAAGTTACAGTACAAATTTGGCATTCACTCCACCTGAATATCTGA
                  |  | |    |    |  || ||| | | | | |  || |   |   ||||        | |  |  ||   || ||  ||||| |  || ||||||||||| || |||||||| ||||| || ||  | ||||| |||||||||||||| ||||||||||| || || || |||||  |||
------------------gtgagtatcgtgtgatt-tgttttttcaacatgatcagcagtgggttctgtaacacagttatgctgtctatatacta--cagGACTGTAACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGA

upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G63500.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------ggcactgatactgtggaagaaactgctataaattagtgctttcttagccta--aatagta-tgtgtgactgtcctttttctttttttcctccttattattcagGAATACAATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGATGGGAAAAGTTACAGTACAAATTTGGCATTCACTCCACCTGAATATCTGA
                              |  |   |     || ||  |||   | | |  |||    |  |   |||  || ||||||| | |          |  |   |  |   | || |||| |  ||||| |||||||||||||||||||||||||||||||||||||| || || ||||| || || ||  |||| |||||||| || || ||||| |
gtaagttaagcttatttttattttattttgggcaagataagttaagcttatatgtttgattatttttaacgtttgtcaatgttaatgtgtgaatatagaaacatcatcatatgttttgtgtttttagGACTCAAATCCAAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGACGGAAAGAGTTATAGCACCAACCTGGCGTTCACTCCTCCAGAGTATCTCA

upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G41260.1 (Arabidopsis thaliana), 3'ss of exon 4
ggcactgatactgtggaagaaactgctataaattagtgctttcttagcctaaat--agtatgtgtgactgtcctttttctttttttcctccttattattcagGAATACAATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGATGGGAAAAGTTACAGTACAAATTTGGCATTCACTCCACCTGAATATCTGA
                   |   || || | |||  |      || |  |   |  ||| | | |||   |  ||||  | |||||  | ||||  || ||       ||||| |||||||||||||| ||| |||||||||| ||||||||||| || ||||| || || ||  ||||||||||||| || || |||||||
----------------gtaagtttgatacagatttttttacctttggtttctgtcaagtgtatatgagaataatttta-tgtttttgtttcttagGATGCA-------AATCCAAGACTTTCATGCTTTGGTTTGATGAAAAACAGTAGAGATGGAAAGAGTTATAGCACTAACCTGGCATTCACTCCTCCCGAGTATCTGA

upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 6
ggcactgatactgtggaagaa-actgctataaattagtgctttcttagcctaaatagtatgtgtgactgtcctttttctttttttcctccttattattcagGAATACAATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGATGGGAAAAGTTACAGTACAAATTTGGCATTCACTCCACCTGAATATCTGA
              | ||| |   |||| |   | | |  | |  ||   |   |  | | | | |   || ||  |   ||  || |  | | |  ||||||   | ||||||||||||||||||| ||| ||||||| |||||||||||||| |||||||| || ||||| || || || || || |||||||||||||
--------------gtaagtatgttgctttttttcaattttatggtatttttt-ttttctcttttagaatctttgatacattgctcttattaaat-ctcagGATGGCGATCCTAGACTTTCATGCTTTGGTATGATGAAGAATAGTAGAGATGGAAAAAGTTATAGCACAAACTTAGCCTTTACACCTCCTGAATATCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcctaaatagtatgtgtgactgtcctttttctttttttcctccttattattcagGAATACAATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGATGGGAAAAGTTACAGTACAAATTTGGCATTCACTCCACCTGAATATCTGA
 gcctaaa  putative branch site (score: 3)
                 tgactgtcctttttct  putative PPT
                          tttttcttttttt  TA-rich tract