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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcattacccaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA

Basic information

species Glycine max
transcript GLYMA06G24520.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G24520.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g23740.2 (Oryza sativa), 3'ss of exon 2
----------------------------------------------------------------------------------------------------------------------------------------------gtaatttcatta---cccaaattgacagcttaatttt-taatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                                                                                                                               |  ||| || |        |||  ||  | || | | |       | |||||||| || ||||||||||||||| |||||||||| |||||||| |||||||||||||||||||| ||||| || |||||||| || || ||||||||
gtatgttctcaagttcaatacctgctaattatttgggcattgcttgaaaatattttctcatctccatcctgctactcagaggtggtcagaaaatggttagaacatgcatattcatgaaatgtgttgccatcctcattttgatttggtttgataaaattaaggattctcacttcaactctatttctcgctttagGTTGATTGCGATGAGCACAAGAGTGTGTGCAGCAAGTATGGAGTTTCTGGGTACCCAACAATTCAATGGTTCCCCAAAGGATCCCTGGAGCCCAAAAA

upper sequence: GLYMA06G24520.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g06430.1 (Oryza sativa), 3'ss of exon 2
----------------------------------------------------gtaatttcattacccaaattgacagcttaatttt-taatgta-atgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                                     |||||| ||        ||||    || | |   |  |||  ||  |||||||||||||||||||||||||| |||||||||| |||||||| ||||||||||| ||||| || ||||| || ||||| ||  | || ||||| ||
aagaaaataaaaatggcattcctgtttagtggatatatgttattaggatctaataattttat-gtgtttgttgatgaattgactccattttgtctatccagGTTGACTGTGATGAGCACAAGAGTGTGTGCAGCAAGTATGGAGTTTCTGGGTACCCCACAATCCAATGGTTCCCCAAAGGTTCCTTGGAGCCCAAGAA

upper sequence: GLYMA06G24520.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 2
--------------------------------------------------------------------------------------------------------------gta-atttcattacc----caaattgacagcttaatttttaatgta----atgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                                                                                               || ||||| || |       |||| || | ||   ||||  | |     |  ||||||||||||||||||||||||||| | |||||||| |||||||| ||||||||||| |||||||| |||||||| ||||| || || || || || ||
gtacatctcaccttgtttagtctccccaggggaatgttggtattgcaacagttttcatcatttacatcccacaattttctatggtatcgaaacttgttctgaatatctaattacatttctttgctgcaatgaattaactgttttcctttttgtatctactacctagGTTGACTGTGATGAGCACAAGAGTGTATGCAGCAAGTATGGAGTTTCTGGGTACCCCACAATTCAATGGTTTCCCAAAGGTTCCCTGGAGCCAAAGAA

upper sequence: GLYMA06G24520.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G128171_T04 (Zea mays), 3'ss of exon 2
---------------------------------------------------------gtaatttcattacccaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                                          |||  |||||  |  |  | | |   |  ||| |  | |    |||||||| ||||||||||||||||||||||||||||| |||||||| || ||||| |||||||| || ||||| || ||||||||  | || ||||||||
gataagaaaattattgacacatggctatgacatttcttctgcactttttgcggtttcataaaatcattcacttatcttaaaatctggtttctttttt----tagGTTGATTGTGATGAGCACAAGAGTTTGTGCAGCAAGTATGGAGTTTCCGGGTATCCAACAATCCAATGGTTCCCGAAAGGATCCTTGGAGCCCAAAAA

upper sequence: GLYMA06G24520.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 2
------------------------------gtaat-ttcattacccaaat---tgacagcttaatt-------tttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                ||| || |  |   | ||   ||| || ||  ||       | || |||  || ||||||| ||||||||||| |||||| | || |  |||||||| ||   ||| |||||||| |||||||||||||| |||||||||||||||||  ||||
gttagtgtgattctatttcggtattcagctccaatgtttaaaagatagatgaatgatagattgtttcaacttgtgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatttcattacccaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                       ttttaat  putative branch site (score: 3)
                                          ttaatttttaatgtaa  TA-rich tract