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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcttaattactccatcatcatgtttctgaatgtgtatagttggttttattcacaagtattgttttttactaatcatcttctcaaacagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG

Basic information

species Arabidopsis thaliana
transcript AT2G17890.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 5
gtagcttaattactccatcatcatgtttctgaatgtgtatagttggt-tttattcacaagtattgttttttactaatcatcttctcaa-acagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG
                ||  ||| |||    |   | | ||     | |  |||   |  |  |  | |  | |||   | | |||    ||||||||||| ||||| |||||| |||||||||| ||| |||| ||||| ||||| ||||| ||||| |||||||| || |
--------------gtatggtcaagttcgctagcatatctacgcaatatggatttgtatatgctactatacattaaaattttcctctttgcagAATTTTCTTTTCAAGTCAACCAAAGAAGATTCACCTTTAAAGGCTACCGATTTTGGTTTGTCTGATTTCATAAAACCTG

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 6
---------------gtagcttaattactccatcatcatgtttctgaatgtgta-tagttggttttattcacaa-gtattgttttttactaatcatcttctcaaacagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG
                | || ||  | |   ||     ||       || | || || | | |  ||| || ||  ||||  | |||     | | ||  ||   ||||||||||| || ||||||||| |||||||||| ||| |||| || |||||||| ||||| || || |||||||| || |
gtatgatcaagcacatttgcatatctgccaaatttgtgtgaaatgagatctatactactagatgctatacataatatattaatattt-----ttacctattcttgcagAATTTTCTTTTTAAATCAACCAAAGAAGATTCACCTTTAAAGGCCACTGATTTTGGTTTGTCAGATTTCATAAAACCTG

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G08180.1 (Glycine max), 3'ss of exon 5
gtagcttaattac-tccatcatcatgtttctgaatgtgtatagttggttttattcacaagtattgttttttactaatcatcttctcaaacagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG
   |  |  | |  |       ||| | |  | |  | |  |||||  | || |   |     | | ||  | |  || ||||  ||  ||||||||||| ||||| |||||| |||||||||| ||| |||| ||||| ||||| ||||| ||||| || ||||| || |
---gtgtggtcaagtttgctggcatatctacgca-atatggagttg--tgtaattttactctatatattaaatttttcctctttgcatgcagAATTTTCTTTTCAAGTCAACCAAAGAAGATTCACCTTTAAAGGCTACCGATTTTGGTTTGTCTGATTTTATAAAACCTG

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 4
gtagcttaattactc-catcatcatgttt-ctgaatgtgtat-agttgg---ttttattcacaagtattgttt--tttactaat-----catcttctcaaacagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG
   |  | || |  | |||   ||| | | |  ||| ||| | |  ||     | || |   |  |  | | |  |  | ||||      | ||  ||   ||||||||||| || ||||||| | |||||||||| ||| |||| || || ||||| ||||| || || |||||||| || |
---gtatgatcaagcacatttgcatatctgccaaatttgtgtgaactgagatctatactactagatgctatataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 4
-------gtagcttaattactccatcatcatgtttctgaatgtgtatagttggttttattcacaagtattgttttttactaatcatct-tctcaaacagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG
       | || ||  |  | |   |||||   || ||  | |   | || |   |||| |  ||   |  ||   |   | |  | | || ||   |||||||||| ||||| |||||| |||| || |||||| | || || || ||||| ||| |||| |||||||||||||| |
gtataatgaagtttgctggcaca--catcaaaattttggctttaatttgtagccattatgcctaatggtgcttcccttacatttttttatcgcatgtagAATTTTCTTTTCAAGTCAACCAAAGAGGACTCGCCTTTGAAGGCCACGGATTTTGGTCTATCAGACTTCATAAAGCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatagttggttttattcacaagtattgttttttactaatcatcttctcaaacagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG
                                 tactaat  putative branch site (score: 1)
                                       tcatcttctc  CT-rich tract
                       tattgttttttactaa  TA-rich tract