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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtattataacctgctatatacagacatagaaaatgctttggagaattttctatattatttgacatggttctttctctttgtagACTGGAGGAACACTTCCAATTACTGCCAGAACCTTAGAAACAATAATTCGTCTTTCTACTGCTCATGCCAAAATGAAGTTGAGTAGACAG

Basic information

species Vitis vinifera
transcript Vv10s0003g03080.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os05g39850.1 (Oryza sativa), 3'ss of exon 11
-------gttggtattataacctgctatatacagacatagaaaatgctttggagaattttctatattatttgacatggttctttctctttgtagACTGGAGGAACACTTCCAATTACTGCCAGAACCTTAGAAACAATAATTCGTCTTTCTACTGCTCATGCCAAAATGAAGTTGAGTAGACAG
        |  | ||     | || | | |   ||  || |  ||| | |       |   | | || |||  |||     | |    | ||    |||||| |||||||| || || || || ||  | ||||| ||||||||||| ||||||||||||||||| ||||| |||||     ||
gtttgctctaagcatggctccttgtttttttttgatgta-atgatgttatatgtttgtaattgttttcttttccat----ttgttctatagTCTGGTGGAGGTACACTTCCGATCACAGCGAGGACACTGGAAACCATAATTCGTCTATCTACTGCTCATGCCAAGATGAAATTGAGACATGAG

upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G100639_T01 (Zea mays), 3'ss of exon 11
gttggtattataacctg-ctatatacagacata--gaaaatgctttggagaattttctatattatttgacatggttctttctctttgtagACTGGAGGAACACTTCCAATTACTGCCAGAACCTTAGAAACAATAATTCGTCTTTCTACTGCTCATGCCAAAATGAAGTTGAGTAGACAG
||| | |||  | | || ||   | | | | |   ||   | |||    |||  |   || |||||  || ||  | |||  |  |   |  |||||| |||||||||||||| || || ||  | ||||| ||||||||||| || || ||||||||||| |||||  ||||     ||
gtttg-attcaagcatgtctgcctgctgtcttgttgatggtacttgtttgaagctctcat-ttattc-acctgcgtattttacagTCCGG--TGGAGGTACACTTCCAATTACAGCAAGGACACTGGAAACCATAATTCGTCTATCGACAGCTCATGCCAAGATGAAACTGAGGCATGAG

upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G08920.1 (Glycine max), 3'ss of exon 11
gttggtattataacctgctatatac---agacatagaaaatgctttggagaattttctatattatttgacatggttctttctctttgtagACTGGAGGAACACTTCCAATTACTGCCAGAACCTTAGAAACAATAATTCGTCTTTCTACTGCTCATGCCAAAATGAAGTTGAGTAGACAG
|||   |||   |  ||  ||  ||   | ||||  ||     | |  | | |  ||| |||   |||| ||  | ||  || | || ||||||||||||||||||| || ||||||||||| |||||||| ||||| ||||| || || |||||||||||| |||||||||| ||| ||
gttaacattgggaattgaaattgactctaaacattcaagccattgtacaaagtagtct-tata--ttgatatcatgctggctttatgcagACTGGAGGAACACTTCCCATAACTGCCAGAACTTTAGAAACCATAATACGTCTCTCAACAGCTCATGCCAAATTGAAGTTGAGCAGAGAG

upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA05G25980.1 (Glycine max), 3'ss of exon 11
gttggtattataacctgctatatac---agacatagaaaatgctttggagaattttctatattatttgacatggttctttctctttgtagACTGGAGGAACACTTCCAATTACTGCCAGAACCTTAGAAACAATAATTCGTCTTTCTACTGCTCATGCCAAAATGAAGTTGAGTAGACAG
||| | |||   |  ||  ||  ||   | ||||| ||     | |    | |  | | | ||||| || ||  | ||  || | || ||||||||||||||||||| || ||||||||||| |||||||| ||||| ||||| || || |||||||||||| |||||||||| ||| ||
gttagcattgggaattgaaattgactctaaacatacaagccattgtactaagtagttttt-ttatt-gatattatgctggctttatgcagACTGGAGGAACACTTCCCATAACTGCCAGAACTTTAGAAACCATAATACGTCTCTCAACAGCTCATGCCAAATTGAAGTTGAGCAGAGAG

upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G46280.1 (Arabidopsis thaliana), 3'ss of exon 11
gttggtattataacctgctatatacagacatagaaaatgctttggagaattttctatat--tatttgacatggttcttt--ctctttgtagACTGGAGGAACACTTCCAATTACTGCCAGAACCTTAGAAACAATAATTCGTCTTTCTACTGCTCATGCCAAAATGAAGTTGAGTAGACAG
    ||| | ||       | |||       | |   |   ||       ||   |  |  |||||||||      |     ||| || |||||||||| || ||||| || || ||||||||  |||| ||||||||||||||| |||| || |||||||||||||||||||||||  ||
----gtaatttatttcataaaataacattggacactgtatctttttcgtcttgggaacttgtatttgacacaaccatcgaaatctctgcagACTGGAGGTACGCTTCCGATAACAGCCAGAACTCTAGAGACAATAATTCGTCTTGCTACGGCACATGCCAAAATGAAGTTGAGTAGCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaatgctttggagaattttctatattatttgacatggttctttctctttgtagACTGGAGGAACACTTCCAATTACTGCCAGAACCTTAGAAACAATAATTCGTCTTTCTACTGCTCATGCCAAAATGAAGTTGAGTAGACAG
                            atttgac  putative branch site (score: 4)
                                       ttctttctctttgt  putative PPT
               aattttctatattatt  TA-rich tract