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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgcatcatgatacttacggaacagaaaaacttatcatttcaaataaagtttatcagtttactttcaagctgtaactggagtgtctcgatttttagGTTCTGGGTTGTCAAGTTCTGCTGCATTTGTTTGCTCAGCAACAATTGCTATTATGGCTGTCTTTGGTCATAACTTTGAGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G06580.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G458549_T02 (Zea mays), 3'ss of exon 4
gtatatgcatcatgatacttacggaacagaaaaacttatcatttcaaataaagtttatcagtttactttcaagctgtaactggagtgtctcgatttttagGTTCTGGGTTGTCAAGTTCTGCTGCATTTGTTTGCTCAGCAACAATTGCTATTATGGCTGTCTTTGGTCATAACTTTGAGAAG
     |      |  | |||  ||   | ||| |  ||||  |||   | | |||||| |   ||         ||   |||   | ||||   | ||||| |||||  ||||||| || || |||||||| || ||||||||||||||||| ||||   || |||   | ||||||   |||
----gtttgatttagtgctttgggtgtacaaata--tatc-cttctgttcatgtttataaaaataaa---ggattgctgctgttatttctc--ctgttagGCTCTGGACTGTCAAGCTCAGCAGCATTTGTCTGTTCAGCAACAATTGCTATCATGGGAATCCTTGACAAAAACTTTCCAAAG

upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G36610.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------gtatatgcatcatgatacttacggaacagaaaaacttatcatttcaaataaagtttatcagtttactttcaagctgtaactggagtgtctcgatttttagGTTCTGGGTTGTCAAGTTCTGCTGCATTTGTTTGCTCAGCAACAATTGCTATTATGGCTGTCTTTGGTCATAACTTTGAGAAG
                                                                       |   |  ||| ||||   ||    | |  | || || ||  || |    || |  || |           |||  ||| |    | | ||  |||  |||||||||  | ||||| ||||| |||||||| |||||| | |||||||||||||||||||  |||| |   |||||   ||||
gtgtgttcattagttttgaattagaatggtgctgctaaggacatgtaaatttacctctaagttaatgttgatcattatatcttgatctctattagagatgacaatttgtccgttgatggcaa-taaattaaaaggaaaaagagcaataatttatttatttc--tttacagGTTCTGGACTATCAAGCTCTGCAGCATTTGTCTGCTCATCCACAATTGCTATTATGGCTGCTTTTGATGTGAACTTCCCGAAG

upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G03990.1 (Glycine max), 3'ss of exon 4
-----------------------------------------gtatatgcatcatgatacttacg--gaacagaaaaacttat----catttcaaataa-agtttatcagtt--------tactttcaagctgtaactggagtgtctcgatttt-tagGTTCTGGGTTGTCAAGTTCTGCTGCATTTGTTTGCTCAGCAACAATTGCTATTATGGCTGTCTTTGGTCATAACTTTGAGAAG
                                         | | ||  | |   |   | | |  || ||  | | ||  |     |||  | || | | ||| || |||        ||  || ||     ||  | | | | |   ||||  |||||||||  | ||||| ||||| || ||||| |||||| | |||||||||||||||||||  |||| |   |||||    |||
gtgtgttcattagttcattagaaatgtgctgctaaggacatgcaaatttacctctaagttaatgttgatcattatatctggttctctattagagatgacaatttgtccgttgatggcaatagattaaaaggaaaagagcaatattttttttttgcagGTTCTGGACTATCAAGCTCTGCAGCGTTTGTCTGCTCATCCACAATTGCTATTATGGCTGCTTTTGATGTGAACTTCCCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaataaagtttatcagtttactttcaagctgtaactggagtgtctcgatttttagGTTCTGGGTTGTCAAGTTCTGCTGCATTTGTTTGCTCAGCAACAATTGCTATTATGGCTGTCTTTGGTCATAACTTTGAGAAG
                            ctgtaac  putative branch site (score: 3)
                                                ttttt  putative PPT
                                               attttta  TA-rich tract