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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgttcataccgatgttttttctttcccttatttccccttggtttgggtttttgagctaagccaaggtttgacagttttcaacagttattcttgtgtccgttgaagtgatgagatgacttttttttttggtgtgccaaccttacttttacccctttttttaaaaataatttttctttacttaaaacagGCTGGACTTTCCATGGCATTGGGGGCATTTTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTG

Basic information

species Glycine max
transcript GLYMA07G08030.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 3'ss of exon 11
gtaggtgttcataccgatgttttttctttcccttatttccccttggtttgggtttttgagctaagccaaggtttgacagttttcaacagttattcttgtgtccgttgaagtgatgagatgacttttttttttggtgtgccaaccttacttttacccctttttttaaaaataatttttctttacttaaaacagGCTGGACTTTCCATGGCATTGGGGGCATTTTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTG
                                                                                                | |||   ||    | || | ||  |    ||   | || |||   ||||   | |||       |||  |  |  |||| || | || |   ||||||||| | || |||||| |||| ||||||||||||||| || | || |||||||| || || |||||||||||||| || ||||||||||| || ||||
-----------------------------------------------------------------------------------------------gtatgtatatttttcttattatatcccagccttgcatagt-tgcattccttgaatctac-------tttgcatgttgttttactct-ctcatttcagGCTGGATTGTCGATGGCACTGGGAGCATTTTTGGCTGGTCTATTGCTAGCAGAAACAGAATTCTCCTTACAGGTTGAGTCGGATATTGCTCCTTACCGTG

upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G058948_T01 (Zea mays), 3'ss of exon 10
gtaggtgttcataccgatgttttttctttcccttatttccccttggtttgggtttttgagctaagccaaggtttgacagttttcaacagttattcttgtgtccgttgaagtgatgagatgacttttttttttggtgtgc-caaccttacttttacccctttttttaaaaataatttttctttacttaaaacagGCTGGACTTTCCATGGCATTGGGGGCATTTTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTG
                                                                                                       |||    |  | | |||  | |||| |    | ||| |  | | |   |||   ||  |||| |   ||   |     || | |   ||||||||  | || |||||| | || || |||||||||||| |  |||| |||||||| ||||| |||||||||||||| || ||||| ||||| |||||||
-------------------------------------------------------------------------------------------------------gtttgtattct-atatgcttattttctagcctttgcactgcttaaaagttaaaactacttttgattttatggtactactattca---cagGCTGGGTTATCGATGGCACTTGGAGCTTTTTTGGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCCTTACAGGTTGAGTCAGATATAGCTCCTTATCGTG

upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G00630.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaggtgttcataccgatgttttttctttcccttatttccccttggtttgggtttttgagctaagccaaggtttgacagttttcaacagttattcttgtgtccgttgaagtgatgagatgacttttttttttggtgtgccaaccttacttttaccccttttt--ttaaaaataatt-tttctttacttaaaacagGCTGGACTTTCCATGGCATTGGGGGCATTTTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTG
                                                                                                | ||| | ||||  |   | | ||    ||  | ||   ||   ||  || ||||  |   | |||  |||| |  |||| |||||||  |||||  |||| ||||||||||||||||| || || |||||||||||| ||||||| ||||| ||||| |||||||| || |||||||| ||||| |||||||| ||||
-----------------------------------------------------------------------------------------------gtatgttc-ttgattttccgtgttggtgcttggtattctcgt---aattttgctttgtcttttgtttcgttaagataaattgtttctttctttaaattagGCGGGACTTTCCATGGCATTAGGAGCGTTTTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTG

upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaggtgttcataccgatgttttttctttcccttatttccccttggtttgggtttttgagctaagccaaggtttgacagttttcaacagttattcttgtgtccgttgaagtgatgagatgacttttttttttggtgtgccaaccttacttttacccctttttttaaaaataatttttctttacttaaaacagGCTGGACTTTCCATGGCATTGGGGGCATTTTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTG
                                                                                                | || ||||     || ||  ||    |  |||  ||   |||||    |||||    ||| | |  ||   ||  ||    |||   |||| ||||||||||||||||||||||| || || |||||||||||| |||| || ||||| || || ||||| || || || ||||| |||||||||||||||||||
-----------------------------------------------------------------------------------------------gtatgaccgtgaccttgttggcattgagtagtttactgacatgccag---tactt----cccgtctgcta---atttttccagtttctataaatcagGCTGGACTTTCCATGGCATTAGGAGCGTTTTTGGCTGGTCTACTCCTTGCAGAGACAGAATTTTCGTTGCAAGTAGAATCAGATATTGCTCCATATCGTG

upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 9
gtaggtgttcataccgatgttttttctttcccttatttccccttggtttgggtttttgagctaagccaaggtttgacagttttcaacagttattcttgtgtccgttgaagtgatgagatgacttttttttttggtgtgccaaccttacttttacccctttttttaaaaataatttttctttacttaaaacagGCTGGACTTTCCATGGCATTGGGGGCATTTTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTG
                                                                                             | |||  | | ||  |    |   || | | |||| ||        |||  |   | |  |   |||  |||| || || |  | |||  |   ||||||| || ||||||||||||||||| ||||||||||||||||| || || ||||||||||| |||||||||||||||||||| |||||||||||||||||||
--------------------------------------------------------------------------------------------gtattggatgcttttcataattattattattcttttcttataccaatcaagttgtgtctcccttttttccttaagaaaaaatcatttttctt--gaacagGCAGGCCTTTCCATGGCATTGGGAGCATTTTTGGCTGGTTTGCTTCTTGCAGAAACTGAATTTTCCTTACAGGTTGAATCAGATATTGCTCCATATCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccaaccttacttttacccctttttttaaaaataatttttctttacttaaaacagGCTGGACTTTCCATGGCATTGGGGGCATTTTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTG
    accttac  putative branch site (score: 3)
                                   tttttctttactt  putative PPT
                    tttttttaaaaataat  TA-rich tract