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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagcaggcgtcctaccttttttatataagaaagtcttattaagcagacacgtagaggttttggtattttgcaataacgatctaatctaatcttaccctgtcatttcagAACAAATGCAATGTGGGATATGCTTTCATCAATCTTATTGAACCTGAAAAGATTGTCCCATTTTTTAAG

Basic information

species Arabidopsis thaliana
transcript AT5G61960.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G61960.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 12
gcaagcaggcgtcctaccttttttatataagaaagtcttattaagcagacacgtagaggttttggtattttgcaataacgatctaatctaatcttaccctgtcatttcagAACAAATGCAATGTGGGATATGCTTTCATCAATCTTATTGAACCTGAAAAGATTGTCCCATTTTTTAAG
        | |  |||  ||| ||   || | ||  || ||  | || |   ||  || |  |  |   |      ||  |   |||   || |   |||    ||||||||||| |||||||| || ||||||||||||||| | |   | ||| |  | ||  | ||||||| | ||
--------gtgatctagatttatttagtatgcaa--ctaatacatcatatttgttcagatagtcttgcctaatcg-aattactgaatgggatgt-gtcctact-tttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCATATCATTCCATTTTATCAG

upper sequence: AT5G61960.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os05g01240.2 (Oryza sativa), 3'ss of exon 12
gcaagcaggcgtcctaccttttttatataagaaagtcttattaagcagacacgtagaggttttggtattttgcaataacgatctaatctaatcttaccctgtcatttcagAACAAATGCAATGTGGGATATGCTTTCATCAATCTTATTGAACCTGAAAAGATTGTCCCATTTTTTAAG
             |||| |||||| |          |||| |  | | |    |  |  | |  |||   |   |  ||   ||  |  ||| ||  | | ||   |||||||||||| |||||||| |||||||| |||||| | | ||| ||  |  | ||  ||||||| | ||||
-----------gtctacttttttttt----------cttagt--gtaaaagattgcaactgtgagtacaatttcaggactgacttttgcaatgttcacttttc---tcagAACAAATGTAATGTGGGGTATGCTTTTATCAATATGACTGATCCGCAGCACATAATCCCATTCTATAAG

upper sequence: AT5G61960.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 12
gcaagcaggcgtcctaccttttttatataagaaagtcttattaagcagacacgtagaggttttggtattttgcaataacgatctaatctaatcttaccctgtcattt-cagAACAAATGCAATGTGGGATATGCTTTCATCAATCTTATTGAACCTGAAAAGATTGTCCCATTTTTTAAG
    | | |     ||  | ||  ||  |   || |  | |   | ||| |   | |   | ||  || |    ||| |    |   ||  |   |   | |  ||| |||||||||||||||||||| ||||||||  ||||  | ||||| |||    | ||||| |||||   | ||
----gtaag-----taaatcttgcatggattgaatttctttggggaagaaaatcaca---tatgacatatgcacatatctgattcgcctttttgcaaattctgttttgcagAACAAATGCAATGTGGGCTATGCTTTTGTCAACATGATTGATCCTCTTCATATTGTTCCATTCCATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggttttggtattttgcaataacgatctaatctaatcttaccctgtcatttcagAACAAATGCAATGTGGGATATGCTTTCATCAATCTTATTGAACCTGAAAAGATTGTCCCATTTTTTAAG
                                         ccctgtc  CT-rich tract
                            taatctaat  TA-rich tract