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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgtttggataagattgtttaatttcttatcttattttttcccctttgtggtaaaatatacggagattcatgctgtcaatgagaatatttttcatttattgttgatacatatgatcagGTTTACCCTCATGTTGCAACTGGGTTCTCTGATACATCTGCTTTTCTGAGGGAACTTACTCTCAAGTCCATGCTAATTCTGGCTCCAAAG

Basic information

species Glycine max
transcript GLYMA20G36180.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36180.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g60440.1 (Oryza sativa), 3'ss of exon 11
gtatgttgtttggataagattgtttaatttcttatcttattttttcccctttgtggtaaaatatacggagattcatgctgtcaatgagaatatttttcatttattgttgatacatatgat-cagGTTTACCCTCATGTTGCAACTGGGTTCTCTGATACATCTGCTTTTCTGAGGGAACTTACTCTCAAGTCCATGCTAATTCTGGCTCCAAAG
                                |||  |||  |||||  | ||     | || | |     ||  ||     ||||   ||  ||  ||       |  |||  | | || ||||||| ||| |||||||| ||||||||||||||||| |||||||||||  | ||||| ||  | ||||| |||||  |  |||| || || 
-------------------------------gtatgctatcatttcctgtatg----gacatctgcatgtgtttctgg----aatgttgatgcttgacagg----ataaatatctctaatgcagGTTTTCCCCCATGTTGCCACTGGGTTCTCTGATACTTCTGCTTTTCTTCGTGAACTGACCTTGAAGTCTATGCTTGTATTGGCACCCAAA

upper sequence: GLYMA20G36180.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G40730.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatgttgtttggataagattgtttaatttcttatcttattttttcccctttgtggtaaaatatacggagattcatgctgtcaatgagaatattttt--catttattgttg-atacatatg-atcagGTTTACCCTCATGTTGCAACTGGGTTCTCTGATACATCTGCTTTTCTGAGGGAACTTACTCTCAAGTCCATGCTAATTCTGGCTCCAAAG
         |  ||| || || | |  | |   |    |  | ||| ||| ||        | |  |    | | ||||||| |   | ||| ||||  ||||||   | | ||   | |  |  |||| |||||||||||||| ||||| ||  | |||||||||||||||||  | || || ||||| || || |||||  || | ||||| |||
--------gtaagatcagtttctcttctgtggcaagaaaggtgttcacctatg------ggtgtttgacagtac-tgctgtctaattgcatacttttagcatttacaatgggatgtgtttttactagGTATACCCTCATGTTGCTACTGGATTTGCGGATACATCTGCTTTTCTCCGAGAGCTGACTCTTAAATCGATGCTCGTTTTAGCTCCGAAG

upper sequence: GLYMA20G36180.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 11
gtatgttgtttggataagattg-tttaatt---tcttatcttattttttcccctttgtggtaaaatatacggagattcatgctgtcaatgagaatatttttcatttattgttgatacatatgatcagGTTTACCCTCATGTTGCAACTGGGTTCTCTGATACATCTGCTTTTCTGAGGGAACTTACTCTCAAGTCCATGCTAATTCTGGCTCCAAAG
||||| |  | |  |  || || ||||||    | ||| ||     | |        |   | |||    | |  ||    |  |||||  | | ||| |  | |  ||| |||| | |   |  |||||||  |||||||||| ||||||||||| || || |||||||||||  ||||| | || || || |||||||| ||||| ||||| |||
gtatggtagtggtttctgaatgatttaatcaaattttagctgtccatgttttggacataagataatgcttgtatcttttcaccatcaatttggaaattctaaaatgcttggtgatgcttggcactagGTTTATACTCATGTTGCTACTGGGTTCTCAGACACGTCTGCTTTTCTTCGGGAATTGACACTTAAATCCATGCTTATTCTTGCTCCTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattcatgctgtcaatgagaatatttttcatttattgttgatacatatgatcagGTTTACCCTCATGTTGCAACTGGGTTCTCTGATACATCTGCTTTTCTGAGGGAACTTACTCTCAAGTCCATGCTAATTCTGGCTCCAAAG
                                    tgttgat  putative branch site (score: 4)
                    aatatttttcatttat  TA-rich tract