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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG

Basic information

species Glycine max
transcript GLYMA08G00560.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os12g07190.1 (Oryza sativa), 3'ss of exon 6
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
                                                                                  ||||  ||         ||| |    |  | |||||||  |   |     ||   ||  || || ||   | ||  |||| | | |     |||||| ||||||||  | || ||||||||||| || || |||||||||||||| ||||| || || ||||||
----------------------------------------------------------------------------------gtgagcaatctat----tttagtacttctactattatttacaactt----ccttatttttc-ttctactttact-gatgcatccaa-----atgcagCTCAAAGGATTTGCTTATGCGTGTTGTTGCACAGAATCTTTCTCCTGAATTGACCCTAGTAGAAAAG

upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 6
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
                                                                                  || ||| | ||  |     |    | |||  |     | | || ||        |||||| ||  ||  ||| ||   | ||||           || ||||||||  | || |||||||||||||| |||||||||||||||||||| ||||| || ||||||
----------------------------------------------------------------------------------gt-aagcattccaacttcataacctttaattttcccctttttgatatttttttagttaataatgatat-atggttgtggatttc-----------agCTCAAAGGATGTGCTGATGCGTGTTGTGGCCCAAAATCTTTCTCCTGAGTTAACTCTAGTAGAAAAG

upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G052277_T01 (Zea mays), 3'ss of exon 6
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatat-tattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
                                                                                  || ||| | ||  |   | |    | |||  |   | || |    ||      | |||||| ||   || ||| ||     ||||           ||  ||| |||  | || |||||||||||||| |||||||||||||||||||| ||||| || ||||||
----------------------------------------------------------------------------------gt-aagcattccaactttcttccctttaattttcctgtttttatatatttttgaagttaataatgaaaacatggttgtgaatttc-----------agCCCAAGGGATGTGCTGATGCGTGTTGTGGCCCAAAATCTTTCTCCTGAGTTAACTCTAGTAGAAAAG

upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 6
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
                                                                                        | |  || | ||| |     ||||| | |||| ||     |   ||    |||   |||   | ||  ||||      |||| || ||||| ||||| || ||||| |||||||||||| | |||||| |||| |||||||||||||| || ||||||
-------------------------------------------------------------------------------------gtaagcattctatgttag-----taaaacagtattgtccat--gatccctttctaactgttg-gtgttgtataat------tatgttc-tgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG

upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 4
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
                                                                                    | |    |  ||   |        | || |     | | || ||      || ||||| ||  ||  ||| ||   | |||            || ||||||||  | || |||||||||||||| |||||| ||||||||||||| ||||| || ||||||
------------------------------------------------------------------------------------gtaagcattccatcttcctaacctttaatttcccctttttgatattttttag-ttaataatgatat-atggttgtggatttt-----------agCTCAAAGGATGTGCTGATGCGTGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTTGTAGAAAAG

upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G177485_T01 (Zea mays), 3'ss of exon 1
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
                                                                                  || ||| | ||  |     |    | |||  | |   | | || ||        |||||| ||  ||  ||| ||   | ||||           || ||||||||  |  | |||| ||||||||| |||||| ||||||||||||| |||||  | ||||||
----------------------------------------------------------------------------------gt-aagcattccaacttcctaacctttaatttttccctttttgatatttttttagttaataatgatat-atggttgtggatttc-----------agCTCAAAGGATGTGTTGATGCATGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTATTAGAAAAG

upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
gtaagatctttttc---agaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggt-ttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
|||  ||   ||||   |  ||||   |||| ||||         ||    | || |  |    ||||  ||  || ||| | |    |  |  ||   |||| ||  | | |    |  |||   |||||        ||||| | ||        |  |  |  |||| |    | |||||||||||||| || || ||||| |||||||| ||||| |||||||||||||||||||| |||||||||
gtattattcatttctctactggctcctatcttttct------gactgtaactttgtatca----acaaggttttatttttgcattagcagcatttcaggaggtgttttgatgtctgtttatatctactggt--------ggttacttat--------gtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG
                             gcttaat  putative branch site (score: 4)
             ttaatcatt  TA-rich tract