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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataaaaacatttagaatccgtgttcaaaatttactacgaattatgagaagtgaagataaagattttgtaatctaaatgaaaatgcagTGGTGTTGATCGCTTTAAGAGACAATTTGCTCATCTTGAGGAAAATTACGGTAAGGGTGAGAAAGGCTCACCTCTTCAACGCCAACACGCTTCCTTGCCT

Basic information

species Arabidopsis thaliana
transcript AT3G18040.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G18040.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 8
gtatataaaaacat-ttagaatccgtgttcaaaatttactacgaattatgagaagtgaagataaagattt------tgtaatctaa--atgaaaatgcagTGGTGTTGATCGCTTTAAGAGACAATTTGCTCATCTTGAGGAAAATTACGGTAAGGGTGAGAAAGGCTCACCTCTTCAACGCCAACACGCTTCCTTGCCT
  |  || |  ||| |||||| |    ||   | | ||| |     ||||            ||    |       ||| ||||    |||  |||  |||||||||||||| |||||| |||| |||||||||||||| ||  |||| ||||| ||||| | | || | || || ||  | || || ||||||||||||
acagctagattcatgttagaaacaccctttctattatacaatcttctatgctggccattctcaagtgctaacccagtgttatctttttatgtcaatctagTGGTGTTGATCGGTTTAAGCGACAGTTTGCTCATCTTGAAGAGCATTATGGTAAAGGTGAAAGAAGCACTCCACTCCAGAGGCAGCATGCTTCCTTGCCT

upper sequence: AT3G18040.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 3'ss of exon 8
------gtatataaaaacatttagaatccgtgttcaaaatttactacgaattatgagaagtgaagataaagattttgtaatctaaatgaa-----------aatgcagTGGTGTTGATCGCTTTAAGAGACAATTTGCTCATCTTGAGGAAAATTACGGTAAGGGTGAGAAAGGCTCACCTCTTCAACGCCAACACGCTTCCTTGCCT
      | || |     || || | ||   | ||   | ||  ||      | | |  ||| || |     ||||  ||| | ||| |||           ||  |||||| |||||||| ||||||  ||||||||| |||||||||||| || | ||||| ||||| | |    | || |  |   | || || || |||||||||
gagggggcat-ttctttcacttggcatttatttt---agttcgctgttttatgttaagagttaaaac----atttattaacccaaaagaattctttacctcaacccagTGGAGTTGATCGATTTAAGCAACAATTTGCCCATCTTGAGGAACATCATGGTAAAGGTGAAAGAACTGCGCCACGCCTGAGGCAGCATGCCTCCTTGCCT

upper sequence: AT3G18040.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S80_71V6.2 (Physcomitrella patens), 3'ss of exon 8
----------------------------------------gtatataaaaacatttagaatccgtgttcaaaatttacta--cgaattatgagaagtgaagataaagattttgtaat-ctaaatgaaaatgcagTGGTGTTGATCGCTTTAAGAGACAATTTGCTCATCTTGAGGAAAATTACGGTAAGGGTGAGAAAGGCTCACCTCTTCAACGCCAACACGCTTCCTTGCCT
                                        |  | |||  |||| | |  |||   || ||| ||   |   | ||  | | |   | |  | |||    ||| ||| ||            ||||  || ||||  |||||||||||||||||||| ||||||||| |||| || |||||||  ||     | || ||| |  | ||||| || ||  | || 
gttttttcaatccagtcttatcgtttaaatggcatcatttgattttaatgacatattgc-tccactttgaaagttctttgttctaacaaagtgccctaaccaaaaaagaattgaaatgcttggctgttgaatagTGCGGTGGATCAATTTAAGAGACAATTTGCTCACCTTGAGGAACATTATGGCAAGGGTGGTAACAATCCTCCCCTTGAGAGGCAACATGCCTCACTCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actacgaattatgagaagtgaagataaagattttgtaatctaaatgaaaatgcagTGGTGTTGATCGCTTTAAGAGACAATTTGCTCATCTTGAGGAAAATTACGGTAAGGGTGAGAAAGGCTCACCTCTTCAACGCCAACACGCTTCCTTGCCT
                                     atctaaa  putative branch site (score: 3)
                       ataaagattttgtaat  TA-rich tract