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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtaacctcatatggacatatgtagatttatcctttttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G17440.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G17440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G000718_T01 (Zea mays), 3'ss of exon 8
gtgtgtaacctcatatg--gacatatgtagatttatcctttttggcttgacctcaaaacctgaatgcttatgtctact----tatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG
  ||    |||| | |     ||     |   || |  ||||| | |   |||      ||||||    |     |       ||||||||| ||||| || |||||||| |||| |||||||||||| ||||| || |||||  | || |||||  | || |||
--gttctccctcgttttctagcactcaaatgcttgtttttttttgttactcctacgtggctgaatttgcaaaaaaaaaaaaacatttcagGTTGCTACTGACAAATGCATTATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTCATTGCAATAATTGTTGTTAAG

upper sequence: AT3G17440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G381370_T01 (Zea mays), 3'ss of exon 2
gtgtgtaacctcatatggacatatgtagatttatcctttttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG-------------------------
|||    |   |          |   | ||  ||  || || | |   ||| |    |||||     | |  |  | ||||||||| ||||| || |||||||| |||| |||||||||||| ||||| || || ||  | || |||||  | || |||                         
gtgctccattcccctctctagcactcaaatgcatgtttatttgttactcctaagtggctgaagttacaagatttttcatttcagGTTGCTACTGACAAATGCATTATGGCGTTCCTGTTTCTGATTGTCTGTGGCGTTATTGCAATAATTGTTGTTAAGGTAGGTTGCCGACTCCGAAGGGTAG

upper sequence: AT3G17440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G170191_T01 (Zea mays), 3'ss of exon 2
gtgtgtaacctcatatggacatatgtagatttatcctttttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG
|||    |   |          |   | ||  ||  || || | |   ||| |    |||||     | |  |  | ||||||||| ||||| || |||||||| |||| |||||||||||| ||||| || || ||  | || |||||  | || |||
gtgctccattcccctctctagcactcaaatgcatgtttatttgttactcctaagtggctgaagttacaagatttttcatttcagGTTGCTACTGACAAATGCATTATGGCGTTCCTGTTTCTGATTGTCTGTGGCGTTATTGCAATAATTGTTGTTAAG

upper sequence: AT3G17440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G102903_T02 (Zea mays), 3'ss of exon 8
gtgtgtaacctcatatggacatatgtagatttatcctttttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG
|||    | | | | |  |   |   | ||  ||  || || |||   ||| |    |||||     | |  |  | ||||||||| ||||| || |||||||| |||| |||||||||||| ||||| || || ||  | || |||||  | || |||
gtgctccatcccctctcta-gcactcaaatgcatgtttatttgctattcctaagtggctgaagttacaagatttttcatttcagGTTGCTACTGACAAATGCATTATGGCGTTCCTGTTTCTGATTGTCTGTGGCGTTATTGCAATAATTGTTGTTAAG

upper sequence: AT3G17440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv05s0020g00750.t01 (Vitis vinifera), 3'ss of exon 8
gtgtgtaacctcatatggacatatg-tagatttatccttt-ttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG
|||||||   |  | ||     ||| |  |||||   |   ||   ||  | |  | | || ||  |  |     || | || ||||||||||| |||||||||||||||   ||||| ||||| ||||| || |||||| ||||||| ||||| ||||||
gtgtgta-ttttttctgattccatgctcaatttacattccatttatttctcgtttataactaaaccccaa-----acattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatcctttttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG
             gcttgac  putative branch site (score: 4)
                                             cttatttc  putative PPT
                                           tacttattt  TA-rich tract