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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacagtaaggattgatgctagatcctaacaggaattagtatctatctaccacaacagtgtgacttttcacgtttgagccacgcattgttagaaaatcttatttttttgtacacctgttattttcagCTGGGCGTTGATATTGGGTCATCAACTGTTGCAAGAGGAGTTGTGAGTCTTGTTCTTGGTTACCTCAACAAACTCGTGATTGAAATGGCCTTCTTAATAC

Basic information

species Arabidopsis thaliana
transcript AT2G28320.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G28320.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: LOC_Os10g33930.1 (Oryza sativa), 3'ss of exon 8
gtaacacagtaaggattgatgctagatcctaacaggaattagtatctatctaccacaacagtgtgacttttcacgtttgagccacgcattgttagaaaatcttatttttttgtacacctgttattttcagCTGGGCGTTGATATTGGGTCATCAACTGTTGCAAGAGGAGTTGTGAGTCTTGTTCTTGGTTACCTCAACAAACTCGTGATTGAAATGGCCTTCTTAATAC
                     ||||  | | |||   |||       ||  | |    |    ||| | | |   | ||       |||       |  ||| |   | ||    || ||   ||||||||| || |||||||| || || ||||| |||||| | || || ||||| ||||| ||||| ||| | ||||| || |||||||||||||||||| |  |||
--------------------actag--cgttacaaagattgtctgaaataaatcgtggcgtaatgaatctgccattctgtttggtacatcc-----agctctgaacatctt---tacatgcatttttcagCTTGGAGTTGATATAGGCTCGTCAACAGTTGCACGGGGTGTGGTGAGCCTTGTGCTTGGCTACTTGAACAACCTGGTGATTGAAATGGCCTTCCTGGTAC

upper sequence: AT2G28320.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GRMZM2G069976_T01 (Zea mays), 3'ss of exon 20
gtaacacagtaaggattgatgctagatcctaacaggaattagtatctatctaccacaacagtgtgacttttcacgtttgagccacgcattgttagaaaatcttatttttttgtacacctgttattttc-agCTGGGCGTTGATATTGGGTCATCAACTGTTGCAAGAGGAGTTGTGAGTCTTGTTCTTGGTTACCTCAACAAACTCGTGATTGAAATGGCCTTCTTAATAC
                     ||   |  |   |  |  | | || |   ||| |||  | |  |  |||   ||        | | ||  | ||    ||| |     ||     ||||| |||||| |||| || ||||||||||| |||||||| || ||| |||| || ||||| || || ||||| ||| | ||||| || ||||| ||||||||||||||  |||
---------------------cttacttttctgacaacgttgcatgt---tacaacacaaataag-ttttctgcgaccccagaaggtatattcagc---tctgaacagctt---tgcctgtaattttccagCTTGGAGTTGATATTGGTTCATCAACGGTGGCACGAGGTGTGGTGAGCCTAGTGCTTGGCTACTTGAACAATCTTGTGATCGAAATGGCCTTCTTGGTAC

upper sequence: AT2G28320.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA12G29750.1 (Glycine max), 3'ss of exon 19
gtaacacagtaaggattgatgctagatcctaacaggaat-tagtatctatctaccacaacagtgtgacttttcacgtttgagccacgcattgttagaaaatcttatttttttgtacacctgttattttcagCTGGGCGTTGATATTGGGTCATCAACTGTTGCAAGAGGAGTTGTGAGTCTTGTTCTTGGTTACCTCAACAAACTCGTGATTGAAATGGCCTTCTTAATAC
               || |   | |  | ||| ||  ||  |  ||  ||| | ||      ||  |    |||  ||| |        || |  | ||||  |    ||             | |||||||| || ||||||||||| |||||||||||||||||||| |||||||||||||| ||||| ||||||||| | || || || || ||||| || |||||||
---------------ttaagaattgggcttaatagatatgcatgatgcatcaaacatttagctgcaa----tcatctttcatgtgattcttatctggaaattgtggcattc------------aatttcagCTTGGAGTTGATATTGGATCATCAACTGTTGCAAGAGGTGTTGTGAGTCTTGTCCTTGGGTACCTCAACCATCTGGTTATAGAGATGGCATTTTTAATAC

upper sequence: AT2G28320.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA13G40010.1 (Glycine max), 3'ss of exon 19
gtaacacagtaaggattgatgctagatcctaacaggaattagtatctatcta-ccacaacagtgtgacttttcacgtttgagccacgcattgttagaaaatcttatttttttgtacacctgttattttcagCTGGGCGTTGATATTGGGTCATCAACTGTTGCAAGAGGAGTTGTGAGTCTTGTTCTTGGTTACCTCAACAAACTCGTGATTGAAATGGCCTTCTTAATAC
     | |    || || ||  |||||     || ||   |  |   || || |  ||||  |      ||||| ||  ||  |     || |  | ||||| |    ||             | |||||||| || ||||||||||| ||||||||||| |||||||| |||||||||||||| ||||| ||||||||| | || || || || ||||| || |||||||
-----agaactgggcttaatagtagatat--gcatgatgcatcaaacatttagctgcaactat-----ctttcatgt--gattc-----ttatctggaaatcgtggcattc------------aatttcagCTTGGAGTTGATATTGGATCATCAACTGTCGCAAGAGGTGTTGTGAGTCTTGTCCTTGGGTACCTCAACCATCTGGTTATAGAGATGGCATTTTTAATAC

upper sequence: AT2G28320.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: Vv06s0004g02720.t01 (Vitis vinifera), 3'ss of exon 19
gtaacacagtaaggattgatgctagatcctaacaggaattagtatctatctaccacaacagtgtgacttttca-cgtttgagccacgcattgttagaaaatcttatttttttgtacacctgttattttcagCTGGGCGTTGATATTGGGTCATCAACTGTTGCAAGAGGAGTTGTGAGTCTTGTTCTTGGTTACCTCAACAAACTCGTGATTGAAATGGCCTTCTTAATAC
                         |  || |||||||  || | || | | | |  ||| | ||  | |  |  | || |    |   ||||   || ||  || || |    | || |  || |||||||| ||  | || |||||||||||||| |||||||| || || || ||||||||||| |||||||| ||||| || || ||||||||| | ||  | ||||
----------------------agtactcttacaggaaggag-agctgtat-caaagacaatttgtgtataaaatggttaattgtcatgttgt---aagatgctaattct----aaacattgtaatttcagCTTGGAATCGACATTGGGTCATCAACAGTTGCAAGGGGCGTGGTCAGTCTTGTTCTCGGTTACCTTAACAATCTGGTTATTGAAATGACATTTCTGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgagccacgcattgttagaaaatcttatttttttgtacacctgttattttcagCTGGGCGTTGATATTGGGTCATCAACTGTTGCAAGAGGAGTTGTGAGTCTTGTTCTTGGTTACCTCAACAAACTCGTGATTGAAATGGCCTTCTTAATAC
                                             ttattttc  CT-rich tract
            attgttagaaaatctt  TA-rich tract