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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgcaccattttttttatagatcaactgatgattgtttcaacactttttcaccttctttttatgggattttgcacctacagAATGTTCCTCCGGCGATCCTGCTTCGGTTTCTGAGGGAGCATAGGTCAGAATGGGCTGACAACAACATTGATGCGTATCTAGCAGCAGCAGTTAAAGTAG

Basic information

species Arabidopsis thaliana
transcript AT1G52150.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 11
-------------gtcagtgcaccattttttttatagatcaactgatgattgtttcaac--actttttcaccttctttttatgggattttgcacctacagAATGTTCCTCCGGCGATCCTGCTTCGGTTTCTGAGGGAGCATAGGTCAGAATGGGCTGACAACAACATTGATGCGTATCTAGCAGCAGCAGTTAAAGTAG
             |    |   | ||| ||| ||| |||     | |  |    | | |    | ||| ||  |     | ||  ||||  |   | |||||||| || || || || || ||  |||| |||||||||||||| ||||||||||| |||||||| || ||||| ||   ||| || ||  ||||||| |
aatggtttcagttgcagatatccaattgtttatatcgatttttaggtcttaacattatcctgatatttgactgttgccatgtgccatttctcttgtccagAATGTGCCCCCTGCCATTCTCCTAAGGTTCCTGAGGGAGCATAGATCAGAATGGGCAGACAACAATATGGATGCTTACACAGCTGCTGCTATTAAAGTCG

upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 11
--------------gtcagtgcaccattttttttatagatcaactga-tgattgtttcaacactttttcaccttctttttatgggattttgcacctacagAATGTTCCTCCGGCGATCCTGCTTCGGTTTCTGAGGGAGCATAGGTCAGAATGGGCTGACAACAACATTGATGCGTATCTAGCAGCAGCAGTTAAAGTAG
              |    |     ||| |   ||| |||     |  | |   ||       | ||| ||  |     | ||  ||||  |     |||||||| |  || || || || ||| |||| ||| |||||||||| ||||||||||| |||||||| || ||||| ||   ||| || ||  ||||||| |
aattggtttcagttgcagatattgaattgtcaatatcgatttttaggcttaacattatcctgatatttgactgttgccatgtgccatttctcttgcccagAATGTGCACCCTGCCATTCTCCTTAGGTTCCTGCGGGAGCATAGATCAGAATGGGCAGACAACAATATGGATGCTTACACAGCTGCTGCTATTAAAGTTG

upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 11
-------------gtcagtgcaccattttttttatagatcaactga--tgattgtttcaacactttttcaccttctttttatgggattttgcacctacagAATGTTCCTCCGGCGATCCTGCTTCGGTTTCTGAGGGAGCATAGGTCAGAATGGGCTGACAACAACATTGATGCGTATCTAGCAGCAGCAGTTAAAGTAG
             |    |     ||| ||| |||  ||     |   | |   ||       | ||  |   |     | || || ||  |   | |||||||| || || || || || ||| |||||||| |||||||||| ||||||||||| ||||| || || ||||| ||   ||| || ||  ||||||| |
aatggtttcagtcgcagatatcgaattgtttatatctatttttgggccttaacattatcctgatattagaatgttgccatgtgcgacttcacttgtccagAATGTGCCCCCTGCCATTCTCCTTAGGTTTCTGCGGGAGCATAGATCAGAATGGGCAGACAATAATATGGATGCTTACACAGCTGCTGCTATTAAAGTTG

upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 11
---------gtcagtg--caccattttttttata--gatcaactgat--gattgtttcaacactttttcaccttctttttatgggattttgcacctacagAATGTTCCTCCGGCGATCCTGCTTCGGTTTCTGAGGGAGCATAGGTCAGAATGGGCTGACAACAACATTGATGCGTATCTAGCAGCAGCAGTTAAAGTAG
         ||  | |  | ||||||| || |||   |||   |  |   |  | || |   ||| |||   |  | | |     ||||  ||  | |||||||| ||||| || || || ||| |||||||| ||||||| || ||||||||||| |||||||| |||||||| ||   ||| ||||| || ||||| |
ttggtcatggttgggggcctccattttcttgatattaatctttttgtttaaaggctttatatcttgttctgatgttctgttcactatttatcattttcagAATGTGCCTCCAGCAATACTTCTTAGGTTTCTGCGGGAGCACAGATCAGAATGGGCAGACAACAATATTGATGCTTACTCAGCTGCAGCTGTAAAAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgattgtttcaacactttttcaccttctttttatgggattttgcacctacagAATGTTCCTCCGGCGATCCTGCTTCGGTTTCTGAGGGAGCATAGGTCAGAATGGGCTGACAACAACATTGATGCGTATCTAGCAGCAGCAGTTAAAGTAG
 aactgat  putative branch site (score: 3)
                           ttctttttat  TA-rich tract