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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatttaatgtctagcttgatatttctagtatttagtgtttgatgattctgctatggtgtgtgggtttttatagtggtttttgacaagagcaatgttcatgtgtctaatgtagGTCACAGATCTTGTATTCTTGGATGGTGGTAAGAAACTTGTAAGTTCATCTAAGGACAAGTTCTTGAGAGTCTGGGATCTTGAGACCCAACACTGTATGC

Basic information

species Arabidopsis thaliana
transcript AT3G21540.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G21540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA03G34360.1 (Glycine max), 3'ss of exon 2
gttatttaatgtctagcttgatatttctagtatttagtgtttgatgattctgctatggtgtgtgggtttttatagtggtttttgacaagagcaatgttcatgtgtctaatgtagGTCACAGATCTTGTATTCTTGGATGGTGGTAAGAAACTTGTAAGTTCATCTAAGGACAAGTTCTTGAGAGTCTGGGATCTTGAGACCCAACACTGTATGC
         |  ||    ||| | ||    |   |     |  |  |  || || |            || | |||  ||||| | | |   | |  ||||   | |   | |||| || ||  |||| ||| ||  |  ||| || || ||||| ||||| || || ||||||||||||||||| |||||| |||| ||||| || |||||||
---------tacctgaaatgagagttacttttcatttccctccaaaaccct-ctgtctcaaacataggttgagagt--tttttaatatg--tatttctcattcatttgtggcagGTAACTGACGTTGTTTTCCTGAGTTCTGGGAAAAAGCTTGTTAGTTCCTCCAAAGACAAGTTCTTGAGAGTGTGGGATATTGATACCCAGCATTGTATGC

upper sequence: AT3G21540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv08s0007g04690.t01 (Vitis vinifera), 3'ss of exon 2
---gttatttaatgtctagc--ttgatatttctagtattta---gtgtttgatgattctgcta--tggtgtgtgggtttttatagtggtttttgacaagagc--aatgttcatgtgtc-taatgtagGTCACAGATCTTGTATTCTTGGATGGTGGTAAGAAACTTGTAAGTTCATCTAAGGACAAGTTCTTGAGAGTCTGGGATCTTGAGACCCAACACTGTATGC
    |||||| |  | |  |  |  | || |  | | || |    | | |  |||   ||||   |  ||| | | || | |||      | ||   ||  |  | ||||  | |  | |  |||||||||| || ||||| |||||||||  |||||| |||||||| |||||||| || ||||| || |||||||| ||||||||||| ||||||||||||||||
gtttttatttgagatttcccaatcaagatcttaaattttgatatatatatattgagcttgctgcttcttgttttgtttataatatctaaatgtggtgagttcctattgtttgttttacatgttgtagGTCACCGACCTTGTTTTCTTGGATTCTGGTAAAAAACTTGTTAGTTCATCCAAAGACAAATTTTTGAGAGTTTGGGATCTTGAAACCCAACACTGTATGC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgggtttttatagtggtttttgacaagagcaatgttcatgtgtctaatgtagGTCACAGATCTTGTATTCTTGGATGGTGGTAAGAAACTTGTAAGTTCATCTAAGGACAAGTTCTTGAGAGTCTGGGATCTTGAGACCCAACACTGTATGC
                                            gtctaat  putative branch site (score: 3)
       tttttatagt  TA-rich tract