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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcacttttgcttcctctcggcacgtaatatctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT

Basic information

species Arabidopsis thaliana
transcript AT3G09090.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 10
gtaagtcactt-ttgcttcctct-cggcac-gtaatatctttagtattttgac-caccaatgtctttcg-----------agttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
||| | || || |||  | || | |    | ||| | | |  | | | | ||  || ||| ||   ||            | | |||| ||||| ||||| ||||||||||||||||| ||||||||||| ||||||||||||||  | || |||||||| || ||||| |||||||| || || |||
gtatgacatttcttgtctgctttgcaattctgtactctgtacaatttctggattcaacaaagtggctcacttctttgcatattgacagGTACAGTATGGTTTTGGCTGATAATGTTGATGGTGGAGATGACCTCGATCTTATTGTTACTACCATGAATGGCAATGTCTTCTGCTTCTCCACTCCCTCT

upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G479744_T01 (Zea mays), 3'ss of exon 6
------------------------------gtaagtcacttttgcttcctctcgg-cacgtaatatctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
                              ||  |  |   |||||     | ||  || | || ||  ||  | |  |   |    ||   || || |  ||| ||||  ||||| ||||||||||| || || ||||||||||| || |||||||||||  | ||||||||||| |||||||| |||||||| || |  || 
gtatgccttatcttctttgcttttctagatgtttgatatcattgctggggattgggtacatcatttccataa-agtgggctgattgttgcactttgactgtcagGTACACTATGGTTTTGGCTGATAACGTGGATGGTGGAGATGACCTTGATCTTATTGTTACCACTATGAATGGCAACGTCTTCTGCTTCTCCACTCAATCA

upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
----------------------gtaagtcacttttgcttcctctcggcac-gtaatatctttagta--ttttgaccac--caatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
                      |  ||    |  |      | | || || ||| |  | | | ||   |  |  |||  |  ||   || || | |||| |||| |||||| |||||||| ||||| || || ||||| ||||| |||||||||||  | |||||||| || ||||||||| |||| || || || || 
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA

upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
gtaagtcactttt-----gcttcctctcgg-cacgtaatat-ctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
|||||  | | ||     | |  |||||||  | |   | |  | || | | ||||       || | ||    |||||| || |||||||||||||| || |||||||| ||||| |||||||| ||||| |||||| |||| |||||||| || ||||| ||||||||||| || |||
gtaagagattctttaactgttatctctcggatatgctttctgttctactttcttgaagttatgtgccattttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT

upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
gtaagtca--cttttgcttcctctcggcacgtaatatct---ttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
|||||  |  ||||  | |       | |  |  | |||    || | | ||||       || | |||    ||||| || |||||||||||||| || || ||||| ||||| |||||||| ||||| |||||| ||||||||||||| || ||||| ||||||||||| || |||
gtaagagattctttaacctgtctcttgaatatgctttctgtcctactttcttgaagttatgtgccattctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT

upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
-------------gtaagtcacttttgcttcctctcggcacgtaatatctttag---tattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
                    | |  || ||  | |       |||| | |  |    | |||  |  |  |||| ||||    ||||||||| ||||||||| |||| || |||||||| |||||||||||||| |||||||||||  |||| |||||||| || || |||||||| ||||| ||| ||
gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgccttt---attacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT

upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ23254 (Selaginella moellendorffii), 3'ss of exon 10
gtaagtcacttttgcttcctctcggcacgtaatatctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
                     |  ||    |       | ||  ||          | | |||   |||||||||| | |||||| || |  || ||||||||||| || || ||||||||||| || ||  |||| ||||||||||||||||  || |||  ||| ||    
--------------------gtaagcctcgagagctgctcgtgattacgtactgtttctttttttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG

upper sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ25263 (Selaginella moellendorffii), 3'ss of exon 10
gtaagtcacttttgcttcctctcggcacgtaatatctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
                       | | ||  |  |  |    |||  |  |     | | |||   |||||||||| | |||||| || || || ||||||||||| || || ||||||||||| || ||  |||| ||||||||||||||||  || |||  ||| ||    
-------------------gtaagcctcgagagctgctcgtgattacgtactgatttctttttttcgttacagATATACCATGGTTTTAGCGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctcggcacgtaatatctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
                         ttttgac  putative branch site (score: 3)
                                      tgtctttc  putative PPT
           taatatctttagtatt  TA-rich tract