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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC

Basic information

species Arabidopsis thaliana
transcript AT1G29890.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 3'ss of exon 8
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
                                                |||  | |     ||| ||||     |  ||| |       |  | || |||  | ||        ||     | | || || |  |||   ||| | || |  |||| ||  | ||  || || | || |  ||||| || ||||||||| ||||||| |||||||| ||||||||||| || || |||||      
-----------------------------------------------gtgagttatg--catgttttctgtcttagcattattctcattaaccatggataggatttt-------acaccattttcctttcatgtaca-gGATATAAGG-ATCCAGAGCCTTCCAAGGCAAACTTACCCCTGCTACATGAGTGGCATTTCCGATCTGGCCTTGATCGATACATATGGATTATTGGAATGAT------

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G076394_T01 (Zea mays), 3'ss of exon 8
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaa--taaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
                                                | |  | ||  |||        ||     |||||  ||           |  | || ||||| ||| ||   |||| || | | || |       ||||    || |||| ||  ||||     || | || |   ||||||||||||  ||| | ||||| |||||||| |||||||||||||| || |||||      
-----------------------------------------------gtaaggtatatatctacgcatcccattgccattttaaatcatggatcaagagttgaagattggaaacaaa---tgatcttttttgttcag-

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 9
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
                                  |||||| |||| |    | || | || | |  |  |       || |  | |  ||||||          ||     | || |   | ||| |   ||| |        |||| || || ||||| || || || || || || ||  | || || ||||||||||||||||| |||||||||||||| ||||| || || ||||| |||||
--------------------------------gcttttgt-atgttgtctgtttgcaattttctagttgatttgctaatataagcttacatgct---------gtttactgcaaatgcata-attgtaatttttatgtgg---cagGTTATACTGATCCTGCAAAGCCTGATCTCCCTCGAATGCATGAGTGGCATTTCAGATCTGGGCTTGATCGCTACATCTGGATAATTGGAATGATTTATGC

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 9
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
                                  |||||| |||| |    | || | || | |  |  |       || |  | |  ||||||          || ||  | || |   | ||| |   ||| |        |||| || || ||||| || || || || || || ||  | || || ||||||||||||||||| |||||||||||||| ||||| || || ||||| |||||
--------------------------------gcttttgt-atgtagtctgtttgcaattttctagttgatttgctaatataagcttacatgct--------gtttagtg-caaatgcata-attgtaatttttatgtgg---cagGTTATACTGATCCTGCAAAGCCTGATCTCCCTCGAATGCATGAGTGGCATTTCAGATCTGGGCTTGATCGCTACATCTGGATAATTGGAATGATTTATGC

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 3
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
                             |  | | |  | |  ||| |  |   ||||||  |||  |     || |     | |    ||  |     ||  ||   |||||   ||         ||  |  ||    ||||| | |  |||||||  |||||| ||  || || || || || ||||||||||| |||||||| ||||||||||| || ||||||||||| |||||      
-----------------------------attactatattgaactggtttgttgctagttcaatctagtggcttaacacca-agttaagttgtgttttccaagttttcaaactagtattt--------tcaatggca-gGTTACAGTG-ATCCAGATCCTTCTAAACAAGGTCTCCCTCGACTGCATGAATGGCATTTTAGATCTGGGCTTGATCGCTATATTTGGATCATCGGAATGAT------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
     aataaaaattggtaa  TA-rich tract