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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttcaacttgaatatcaaaatgtttgtcaatcttatgtttttgtaacttaataatcctttcccaattttggtctctagAGGGCAAGCTGAGAAGGAATTTCGGGTAGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTTAGGCTTTTAGGATATTGCATAGAGGGAGTT

Basic information

species Arabidopsis thaliana
transcript AT2G42960.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os01g41730.1 (Oryza sativa), 3'ss of exon 1
---------------gtaagttttc----aacttgaatatc-------aaaatgtttgtcaatcttatgtttttgtaacttaataat-----cctttcccaattttggtctc-tagAGGGCAAGCTGAGAAGGAATTTCGGGTAGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTTAGGCTTTTAGGATATTGCATAGAGGGAGTT
               ||   ||||     ||   || | |        | |||| || | |||  | || | | ||   | | || |       |   |   || |||| |   |||||||| || || || || ||   ||| ||||||||| |||||||||||||  ||||||||||||| ||  | ||| |||| || ||||| ||||||   
gtaagagacactgaagttgattttagccaaaaaggagtgtttcttccgataatgctttttaatgatttgctatggttgttcactattgaccatatactctggttatggttttgcagAGGGCAGGCAGAAAAAGAGTTCAAGGTTGAAGTTGAGTCTATTGGTCATGTTAGGCACAAGAATCTGGTGCGACTTCTAGGTTACTGCATTGAGGGAAGC

upper sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os01g47470.1 (Oryza sativa), 3'ss of exon 2
gtaagttttcaacttgaatatcaaaatgtttgtcaatcttatgtt--tttgtaacttaataatcctttcccaattttggtctctagAGGGCAAGCTGAGAAGGAATTTCGGGTAGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTTAGGCTTTTAGGATATTGCATAGAGGGAGTT
||||||||  |  |||    | |    ||||        ||||||   ||| | || || | | |||| |    ||||      || |||||||| |||||||||||| | || |||||||| || || ||||| || ||||| |||||||| ||  | ||| | || || ||  | || ||  | 
gtaagtttata--ttg--ccttagtgagtttactg----tatgttaacttggagct-aagatttctttgctgggtttg-----cagGGGGCAAGCAGAGAAGGAATTTAGAGTCGAAGTTGAAGCCATCGGTCACGTTCGGCATAAGAATCTGGTGCGACTTCTGGGGTACTGTGTGGAAGGGATA

upper sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G031400_T01 (Zea mays), 3'ss of exon 2
gtaagttttcaacttgaatatcaaaatgtttgtcaatcttatgtttttgtaacttaataatcctttcccaattttggtctctagAGGGCAAGCTGAGAAGGAATTTCGGGTAGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTTAGGCTTTTAGGATATTGCATAGAGGGAGTT
|||||| | ||   |   |            ||  | ||| |  | |  | |||||    |    |      | |||| |  || ||||| || |||||||||||  | || |||||||| || || |||||||| |||||||||||||| ||  | ||| | ||||||||| | || ||  | 
gtaagtgtacagtctcgctga----------gtttaccttgtaatgtattgacttagagctgagatttggtatctggtttgcagGGGGCAGGCAGAGAAGGAATTCAGAGTTGAAGTTGAAGCCATCGGTCATGTTCGGCACAAGAATCTGGTCCGCCTTCTGGGATATTGCGTGGAAGGGATA

upper sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
gtaagttttcaacttgaata-----tcaaaatgtttgtcaatcttatgtttttgta-acttaataatcctttcccaattttggtctctagAGGGCAAGCTGAGAAGGAATTTCGGGTAGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTTAGGCTTTTAGGATATTGCATAGAGGGAGTT
|||||  |  | |   |  |     ||  | | ||| | |  |||  |||    |    || || |     |    |  | |||    || || || || || || || ||  |||| |||||||||||||| || ||||| ||||| || ||||||||  | ||||| || ||||||||||| ||||||
gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcaatcttatgtttttgtaacttaataatcctttcccaattttggtctctagAGGGCAAGCTGAGAAGGAATTTCGGGTAGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTTAGGCTTTTAGGATATTGCATAGAGGGAGTT
                               tcctttcccaatttt  CT-rich tract
     aatcttatgtttttgt  TA-rich tract