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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaatcttatccctaatctttacctacgtcatatattatcttttactattttggctgctctatcgtcttgttgtcactctgattctagtattttgaatatcaaaaaagGTACGAGCCTTATCTTTGGGAGAACGAAAAGCAGTCGTACCTACGCCATGCTGTACTCTTTGGTTTCTTTGTGCAACTAAACCGAATGTACACAGATACT

Basic information

species Arabidopsis thaliana
transcript AT5G16300.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G34570.1 (Glycine max), 3'ss of exon 4
-gtaagaaatcttatccctaatctttacctacgtcatatattatcttttactattttggctgctctatcgtcttgttgtcactctgattctagtattttgaatatcaaaaaagGTACGAGCCTTATCTTTGGGAGAACGAAAAGCAGTCGTACCTACGCCATGCTGTACTCTTTGGTTTCTTTGTGCAACTAAACCGAATGTACACAGATACT
 | | | |   || |  | ||   |||  |  |   | | | ||  |||  || ||    |  | | | |   |||  ||  ||||||  |     |||  || | |||   |||| ||||| ||||| |||||||| || |  ||||| |||||||| |||||||| ||||||||||||||||||||||| ||||| |||||||||||||||
agcatgca--tttcttgcaaagggttaaattggcagtgtgtaatgattttgtacttctagtaatttct-gcactgtcatc--tctgatctt-----tttttatgttaaa---gGTATGAGCCATATCTCTGGGAGAATGAGAGACAGTCTTACCTACGACATGCTGTTCTCTTTGGTTTCTTTGTGCAACTCAACCGTATGTACACAGATACT

upper sequence: AT5G16300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G32980.1 (Glycine max), 3'ss of exon 4
---gtaagaaatcttatccctaatctttacctacgtcata--tattatcttttactattttggctgctctatcgtcttgttgtcactctgattctagtattttgaatatcaaaaaagGTACGAGCCTTATCTTTGGGAGAACGAAAAGCAGTCGTACCTACGCCATGCTGTACTCTTTGGTTTCTTTGTGCAACTAAACCGAATGTACACAGATACT
   | ||    |   ||    | | | ||   |  |  ||  | |   ||| || || |||  |||| || || |||          |||||  |  |  |||  || | |||   |||| ||||| ||||| |||||||| || |  ||||| |||||||| |||||||| ||||||||||||||||| ||||| ||||| |||||||||||||||
cttgcaaagggttaaattggcagtgtgtaatgattttgtacttctagacttctagtaattt--ctgcactgtcatct----------ctgatcttctttcttt--atgttaaa---gGTATGAGCCATATCTCTGGGAGAATGAGAGACAGTCTTACCTACGACATGCTGTTCTCTTTGGTTTCTTTGTACAACTCAACCGTATGTACACAGATACT

upper sequence: AT5G16300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s0340g00080.t01 (Vitis vinifera), 3'ss of exon 3
gtaagaaatcttatccctaatctttacctacgtcatatattatcttttactattttggctgctctatcgtcttgttgt-cactctgattctagtattttgaatatcaaaaaagGTACGAGCCTTATCTTTGGGAGAACGAAAAGCAGTCGTACCTACGCCATGCTGTACTCTTTGGTTTCTTTGTGCAACTAAACCGAATGTACACAGATACT
        |  | |  ||  | |||  ||   |  | ||     ||  | |    | |    | | |  | |  | || ||   |||||   || |  | ||| |||     |||| |||||||| || ||||||||||| | |||  | ||||| || ||||||||||| ||||| |||||||||||||| || || ||||| || ||||||
-------ttggtgtgtctgttttttttctttcttttctaaatcattcaaattaaatagtcattttttaatgtgatggtacatggtgatttatgt-taataaatttca-----gGTATGAGCCTTACCTCTGGGAGAACGAGAGGCAAGCATACCTCCGGCATGCTGTACTTTTTGGATTCTTTGTGCAACTTAATCGGATGTATACCGATACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgctctatcgtcttgttgtcactctgattctagtattttgaatatcaaaaaagGTACGAGCCTTATCTTTGGGAGAACGAAAAGCAGTCGTACCTACGCCATGCTGTACTCTTTGGTTTCTTTGTGCAACTAAACCGAATGTACACAGATACT
                       ctctgat  putative branch site (score: 4)
                                tagtattttgaatatc  TA-rich tract