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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacctatattactctcgcagcctttaagccagtttcaataggttcaacgattctgaaatctcgttcgttaactttataattttgacagGTCACAGCCTCACGTTTGGCATTCTCAAAGCAAACTATCCCTCACTATTACTTAACCGTCGATACATGTGTTGACAAACTTATGGC

Basic information

species Arabidopsis thaliana
transcript AT1G54220.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G54220.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA07G03930.2 (Glycine max), 3'ss of exon 11
----gtaaaacctatattactctcgcagcctttaagccagtttcaataggttcaacgattctgaaatctcgtt---cgttaactttata-attttgacagGTCACAGCCTCACGTTTGGCATTCTCAAAGCAAACTATCCCTCACTATTACTTAACCGTCGATACATGTGTTGACAAACTTATGGC
    | |  |   || ||  |    ||    |  |   | ||| |    ||  ||  ||     |   |  ||   |   |||| || | ||||| |||||||||||| |||||  |   ||| ||||| |||||||| ||||| || || ||||| || |||||||||||||||||||| | |  
gtaagaatgagtgatgtttttgaaacaaaactatacatatttttatcttgtgtaagcatgagagatgttttttaaacaaaaactatacatatttttacagGTCACAGCTTCACGGCTACTATTATCAAAACAAACTATTCCTCATTACTATTTAACAGTAGATACATGTGTTGACAAACTCACGAG

upper sequence: AT1G54220.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA16G00590.1 (Glycine max), 3'ss of exon 11
-------------gtaaaacctatattactctcgcagcct--ttaagccagtttcaataggttcaacgattctgaaatctcgttcgttaactttata-attttgacagGTCACAGCCTCACGTTTGGCATTCTCAAAGCAAACTATCCCTCACTATTACTTAACCGTCGATACATGTGTTGACAAACTTATGGC
             || ||    || | |   ||  | | |  |  | |  || | |  | |    | | || | |||           |||| || | ||||| |||||||||||| ||||| ||   ||| ||||| |||||||||||||| || || ||||| || |||||||| ||||| ||||| |||  
tctccttctgtgtgtcaatttaatgtaatgttctgatcttaatgtatcttgtgtaagcatgggtgatgttttttaaacaa--------aactatacatatttttacagGTCACAGCTTCACGGTTATTATTATCAAAACAAACTATCCCTCATTACTATTTAACAGTAGATACATGCGTTGATAAACTCATGAG

upper sequence: AT1G54220.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv11s0016g01870.t01 (Vitis vinifera), 3'ss of exon 11
gtaaaacctatattactctcgcagcctttaagccagt---ttcaataggttcaacgattctgaaatctcgttcgttaactttataattttgacagGTCACAGCCTCACGTTTGGCATTCTCAAAGCAAACTATCCCTCACTATTACTTAACCGTCGATACATGTGTTGACAAACTTATGGC
|||| |  | |   | | ||  |     |       |   || |  | | | || ||| |||| |||| | |     | |  | |   |   |||||||| || ||||| |||    | |||||||||||||| ||||| ||||| |||||||| || || ||||||||||| || |||| 
gtaatatgtttgaaattatccaaattagtggatggttgcattgatcaagcttaatgatactgatatctggat-----attcaaaaccctcttcagGTCACTGCTTCACGCTTGCTGCTATCAAAGCAAACTATTCCTCATTATTATTTAACCGTGGACACTTGTGTTGACAAGCTGATGGA

upper sequence: AT1G54220.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv09s0002g01800.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------------------------------------------------------------------------------gtaaaacctatattactctcgcagcctttaagccagtttcaata---ggttcaacgattctgaaatctcgttcgttaacttt-----ataattttgacagGTCACAGCCTCACGTTTGGCATTCTCAAAGCAAACTATCCCTCACTATTACTTAACCGTCGATACATGTGTTGACAAACTTATGGC
                                                                                                |  || || |   |     ||    | |   | | | | ||||    |  ||  ||  ||  |   ||    || ||||||     || |  ||||||| ||||||| |||||  |   ||| || ||||| ||||| || || ||||| || || || ||||||||||||||||||||||||| 
gtaatacttattccgaactcttgttctagcatcttttggggttccaatgcatattatagaaatccattctatttagccatgtttcttctgtttgtttgcaagctttcagatctatgcttaatctttcctattgttaatatttagcacattgaagcttcatcttctgaagtcaactttttggtattaccttgacagATCACAGCTTCACGCCTATTATTATCGAAGCAGACTATTCCCCATTATTATTTGACAGTGGATACATGTGTTGACAAACTTATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaataggttcaacgattctgaaatctcgttcgttaactttataattttgacagGTCACAGCCTCACGTTTGGCATTCTCAAAGCAAACTATCCCTCACTATTACTTAACCGTCGATACATGTGTTGACAAACTTATGGC
                                cgttaac  putative branch site (score: 3)
                                  ttaactttataatttt  TA-rich tract