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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttcttgctttcttttttcataatttaccgctgatcatattcttgtccctttttctctcactgcattgacatctgtttcaggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG

Basic information

species Arabidopsis thaliana
transcript AT5G65930.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 5
--------------gtatcttcttgctttcttttttcataatttaccgctgatcatattcttgtccctttttctc-tcactgcattgacatctgtttcaggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG
                 | |        |      |  | ||||  |  ||     ||| |    | ||||  || | | |  | | |||| || ||||||| || || || |  |||||||| ||| | | ||| |||||||| |||||||||||||||||||||||| | || ||||||||| ||||| | || ||||
aagtgcttgttaagaagtttatccaaacttggccatagtcatttttctttgtctgaattttaaatcattttattcattaattaacttacatttgcttcagGAACTTGCAGGGATCATTAAACTGTCAACATACTCAAGCTTTAGCTTGTTTGAATGTCGTAAAGTTGTTACCAGCTCTAAATCACCTGATTCTGGGAATG

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G21340.1 (Glycine max), 3'ss of exon 8
gtatcttcttgctttctt-ttttcataatttaccgctgatcatattcttgtccctttttctctcactgc---attgacatctgttt------------caggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG
 | | |  ||| || ||| | ||   | ||   |     ||| |  |||||   | |   |   ||| |    || | |||  |||            ||||| || || ||    |||||||| ||| ||| ||| ||||||||| | ||||||||||||||||||||| |  | || ||| || ||||||  || ||||
-tgtttgtttgtttacttatgtttgaagttcttcatacctcaaacacttgtgtttatactttatactacgaagtttatatccttttattccttacctccagGAACTTGCAGGGCTCATTAAACTGTCAACTTACTCCAGCTTTAGTCTATTTGAATGTCGTAAAGTTGTTACTGGCTCCAAAGCACCTGATCTTGGGAATG

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 6
----------------gtatcttcttgctttcttttttcataatttaccgctgatcatattcttgtccctttttctctcactgcattgacatctgtttcaggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG
                 | | |  |||  |   ||  || |   ||  | || ||||  ||    ||  ||| |   | | |  | | |||| || ||||||| || || || |  |||||||| ||| | | ||| |||||||| |||||||||||||||||||||                                  
taacttggccatagtcatttttctttgtctgaattgatcttgtgtttactct-atcaagtttaaatcattttattcattaattaacttacatttgcttcagGAACTTGCAGGGATCATTAAACTGTCAACATACTCAAGCTTTAGCTTGTTTGAATGTCGTAAAGTT----------------------------------

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 6
-----------------gtatcttcttgctttcttttttcataatttaccgctgatcatattcttgtccctttttctctcactgcattgacatctgtttcaggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG
                   ||   |        | | ||  |  ||||   |  || |  ||  | ||| ||| |  ||||||  |   | || |  | ||||| || || ||    |||||||| ||| | |  || ||||||||| | ||||||||||||||||||||| |  | || ||| || ||||||  || ||||
acttcttttgaagttcttgataccccaaacccttgtgtttgtgctttatacc--atgaagtttatatccttttattcctcactcaacatatatttactccagGAACTTGCAGGGCTCATTAAACTGTCATCATATTCCAGCTTTAGTCTATTTGAATGTCGTAAAGTTGTTACTGGCTCCAAAGCACCTGATCTTGGGAATG

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 5
-----gtatcttcttgctttcttttttcata-atttaccgctgatcatattcttgtccctttttctctcactgcattgac---------atctgtttcaggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG
      |       || | | |||| |  || ||  |    || || |  |   |    | |   ||| |    ||| |          ||||| ||||||| || || |||| ||||||||| ||||| | ||||||||| |||||||||||||| || ||| || || |  ||||||||||| ||||||| || |  |
cctttctgctcctctgttctattttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgatcatattcttgtccctttttctctcactgcattgacatctgtttcaggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG
                                  cattgac  putative branch site (score: 3)
                                          tctgtttc  CT-rich tract
       atattctt  TA-rich tract