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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaaatgtttttattatttaatgaaaaattattttcagctgataaatttcttagcatatgccagaattgctttgtgctatattgaggtcatgccttgataagtagttttctgtggtccttgaatccagAACACAAACTCTTCATTGGCATGCTTCCAAAGAATGTTTCTGAAGTTGAAATATCTGCTCTTTTCTCCAAGTATGGAACTATAAAGGATTTACAAATTTT

Basic information

species Glycine max
transcript GLYMA19G39300.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G39300.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g30980.1 (Oryza sativa), 3'ss of exon 3
gtataaaatgtttttattatttaatgaaaaattattttcagctgataaatttcttagcatatgccagaattgctttgtgctatattgaggtcatgccttgataagtagttttctgtggtccttgaatccagAACACAAACTCTTCATTGGCATGCTTCCAAAGAATGTTTCTGAAGTTGAAATATCTGCTCTTTTCTCCAAGTATGGAACTATAAAGGATTTACAAATTTT
              ||| |     |  ||||||||||    |  |||| ||  || | |||| |    | |  ||   | || |||  | | |||  |  ||   |   | | ||  |   |||  |||||| |||||||| |||||||| ||||||||||| |||||  | || | ||||||  ||| | | || ||  | ||||| |  || |||||||| ||||||||
-------------gtatgaggctctctaaaattatttcttcc--ataa-ttcatttgtatatcctcagaataatt---gttaaattttgctaatgtatctatgttttcatgt-tgacgctgttgcttccagAGCACAAACTTTTCATTGGAATGCTTCCAAAAAATGTAACAGATGCTGAAATGACTGATTTATTTTCGCAATATGGGAACATCAAGGATTTGCAAATTTT

upper sequence: GLYMA19G39300.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G03457.2 (Arabidopsis thaliana), 3'ss of exon 3
gtataaaatgtttttattatttaatgaaaaattattttcagctga-taaatttcttagcatatgccagaattgctttgtgctatat------tgaggtcatgc--cttgataagtagttttctgtggtccttgaatccagAACACAAACTCTTCATTGGCATGCTTCCAAAGAATGTTTCTGAAGTTGAAATATCTGCTCTTTTCTCCAAGTATGGAACTATAAAGGATTTACAAATTTT
|||   ||  |  || | | |  |||||   | |    ||   || |   ||| ||      | ||||| ||   | |   | | |      |||   ||  |   ||||||  |  | ||   || || |  |||||||| |||||||| ||| | || ||||||||||||||||| ||||||  |||| |     |  | |||||  | ||                           
gtacgcaaaatgcttctgagt-gatgaagtctaagcaccaaaagagttctttttttctttctttccagagtttggtcgcattttttaatttttgataccaatcaatttgatagATGTTCTTGACTGTTCGTGCAATCCAGAGCACAAACTTTTCGTCGGTATGCTTCCAAAGAATGTCTCTGAAACTGAAGTCCAGTCCTTATTCTCTGAATA---------------------------

upper sequence: GLYMA19G39300.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G03457.1 (Arabidopsis thaliana), 3'ss of exon 3
gtataaaatgtttttattatttaatgaaaaattattttcagctga-taaatttcttagcatatgccagaattgctttgtgctatat------tgaggtcatgc--cttgataagtagttttctgtggtccttgaatccagAACACAAACTCTTCATTGGCATGCTTCCAAAGAATGTTTCTGAAGTTGAAATATCTGCTCTTTTCTCCAAGTATGGAACTATAAAGGATTTACAAATTTT
|||   ||  |  || | | |  |||||   | |    ||   || |   ||| ||      | ||||| ||   | |   | | |      |||   ||  |   ||||||  |  | ||   || || |  |||||||| |||||||| ||| | || ||||||||||||||||| ||||||  |||| |     |  | |||||  | || ||||| || |||||| |||| ||| |
gtacgcaaaatgcttctgagt-gatgaagtctaagcaccaaaagagttctttttttctttctttccagagtttggtcgcattttttaatttttgataccaatcaatttgatagatgttcttgactgttcgtgcaatccagAGCACAAACTTTTCGTCGGTATGCTTCCAAAGAATGTCTCTGAAACTGAAGTCCAGTCCTTATTCTCTGAATACGGAACCATTAAGGATCTACAGATTCT

upper sequence: GLYMA19G39300.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0104g01150.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------gtataaaatgtttttattattta-atgaaaaatta----ttttcagctgataaatttcttagcatatgccagaattg-ctttgtgctatattgaggtc----atgccttgataagtagttttctgtggtccttga-atccagAACACAAACTCTTCATTGGCATGCTTCCAAAGAATGTTTCTGAAGTTGAAATATCTGCTCTTTTCTCCAAGTATGGAACTATAAAGGATTTACAAATTTT
                                    |    ||| || ||  | |||  ||| |  |       || | |     ||  |      || | ||  |    || | ||||||||||||   ||     ||   |  |||| ||  ||| ||   ||||||  ||||||| |||||||| ||  |||| |||||||| |||||||||||||||| |||| | ||| || | || || || |||||||||||||| || ||||||||| |
gtgtaatatattttcattgtttaattacatatttcatccttaatcttgttcctttttggatgtagcagcgccagttcttattctttatctaatgctgcttttgtaaatgatgtccttgtgctatattatagttttatatatttcaataaataactttttgccatccttgctatccagAGCACAAACTTTTTGTTGGTATGCTTCCGAAGAATGTTTCTGAAGCTGAAGTTTCTTCTTTATTTTCTAAATATGGAACTATAAAAGACTTACAAATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgctatattgaggtcatgccttgataagtagttttctgtggtccttgaatccagAACACAAACTCTTCATTGGCATGCTTCCAAAGAATGTTTCTGAAGTTGAAATATCTGCTCTTTTCTCCAAGTATGGAACTATAAAGGATTTACAAATTTT
                   ccttgat  putative branch site (score: 5)
                                          tcctt  putative PPT
     atattga  TA-rich tract