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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctatttattatttgacttcatgtcatcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG

Basic information

species Vitis vinifera
transcript Vv06s0061g00040.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g71320.1 (Oryza sativa), 3'ss of exon 5
-----gtatcctttcttgattttctagtca--tacattacctaac--actgcatttttgagaataaagactgattcttctat--ttattatttg-acttcatgtcatcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
      |||  | || |   | | ||||||  |  ||| |||     | |||   |  |   ||   || | |      |||  |    || ||     | |   |  || | ||  | |||| || |||||||| ||||| |||||||||||||||||||||||||| ||  | || || ||     | |||| ||| |  |  ||||  |||||||||
gtatcttattttctcctttatctgtagtcagttcaatttccttgtcaaatgctcatcagcttatgtggagtaaaggaattatgatgcccatgtgcgtaccctaaaacatttcgttaatcagGTAGTAAACATGGAGTGGGGGAATTTCTGGTCATCACATTTGCCAAGGACGCCATATGACATCTTGCTGGATGATGAAACACACAATCGCAATGATCAG

upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G068913_T01 (Zea mays), 3'ss of exon 5
gtatcctttcttgattttctagtcatacattacctaaca-ctgcatttttgagaataaagactgattcttctatttattatttgact-tcatgtcatc-ttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
           |  | ||||  |  | | || |     | |   ||| |  | |  |  || | || ||       |  || |   | | ||   ||| ||| |||| | ||||||| |||||||||||||| |||||||||||||||||||||||||||||  |||| || ||     | |||| ||| |  |  ||||  |||||||||
----------gtattattctcttgctgctttgctctgtatccaaattatcaatatcatcgatttatcctgtggacaaagatgtagttcttattcaatcgttcaattcatcagGTTGTAAACATGGAATGGGGCAATTTCTGGTCATCACATTTGCCAAGAACTCCTTATGACATCTCCCTTGATGATGAGACGCAAAATCGCAATGATCAG

upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G467069_T02 (Zea mays), 3'ss of exon 5
gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctatttattatttg-acttcatgtc---atcttccattc-gttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
             || ||||  |  | | ||    |  |||  | || | |  ||      |  ||| | |    |  |  || | ||| | |    |||||| |||| || |||| || |||||||||||||| | |||||||||||||||||||||||||||  |||| || ||     | |||| ||| |  |  || |  |||||||||
-----------gtatattctgttgctgctttgttcagtactcaaattatcaatatcgtcgatttttcatttggacaaaagatgcagttcttattgaaatcttcaattctgtcagGTAGTAAACATGGAATGGGGCAGTTTCTGGTCATCACATTTGCCAAGAACTCCTTATGACATCTCCCTTGATGATGAGACACAAAACCGCAATGATCAG

upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 5
gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctatttattatttgacttcatgtca-tcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
                              |||    || ||  ||||| |   | ||   || || || | | |  | ||   |||  | | | |||||  ||  ||||||||| || |||||||||||||| || |||||||| ||||| |||||||||||||| ||||||||||||||   ||| || ||||||||||||||||||
-----------------------------gtactgttca-tgt-tttttaattttcaattttgtttattgtctattgttttgagcttattataactcttctgtttattagGTTGTAAATATGGAATGGGGAAACTTTTGGTCATCTCATTTACCAAGAACATCTTATGATATTGATTTAGACTCTGAAAGCCCTAATCCAAATGATCAG

upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G02450.1 (Glycine max), 3'ss of exon 5
gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctatttattatttgacttcatgtcatcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
    | | |  |||| ||  | | | ||  |   |     ||  |||||   | |   |  | ||| |  | ||| | ||   | |  |    ||||||  ||  ||||||||| || |||||||||||||| || |||||||| ||||| |||||||||||||| ||||||||||||||   ||| || ||||||||||||||||||
---acatcttatgatattg-atttagactctttttttgtttgtttttttttcacttttgttt-attgtcttgttt-tgatcctagtataa---atcttctgtttattagGTTGTAAATATGGAATGGGGAAACTTTTGGTCATCTCATTTACCAAGAACATCTTATGATATTGATTTAGACTCTGAAAGCCCTAATCCAAATGATCAG

upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G43650.1 (Glycine max), 3'ss of exon 5
gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctattt-attatttgactt--catgtcatc-ttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
                                            | ||||    |      |    ||| | |||   | || |||||  | ||| | | ||  ||   |||||||||||| |||||||||||||| || |||||||| || || ||||||||||| || || |||||||| |||| ||| || ||||||||||||||||||
-------------------------------------------gtctttgccctttcttcttttcacttttgttttgcttttggacttgccgtgtaacccttttataatttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCATCTCACTTACCAAGAACATCATATGACATTGATTTGGATGCTGAGAGCCCTAATCCAAATGATCAG

upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G01820.1 (Glycine max), 3'ss of exon 5
gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctatttattatttgacttcatgtcatcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
                                  |  | ||   || ||  || |   |  | ||| || |  || | |  |  ||   |  |  |||  ||   |||||||||||| |||||||||||||| || ||||| || || || |||||||| || || || ||||| || |||| ||| || || |||||||||||||||
-------------------------------gttttgccctttcttcttttgacttttgttt-attgttttgcttttgaacttgctgtgtaac-ccttttatattttagGTTGTCAATATGGAATGGGGAAACTTTTGGTCCTCTCACTTACCAAGAACGTCGTATGACATTGACTTGGATGCTGAGAGCCCAAATCCAAATGATCAG

upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S414_10V6.1 (Physcomitrella patens), 3'ss of exon 4
gtatcctttcttgattttctagtcatacattacctaacactgcatttttgagaataaagactgattcttctatt-tattatttgacttcat--gtcatcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
            | | ||  |   ||   |  | | | |    ||||||||  |   | |||  | ||  | ||  | |   | |  | ||   |    |    || |  ||||  | |||||||| ||||| ||||||||||||||||||||||| || || | |   |||      || |||   || |||   || |||   ||  | 
----------acgttgtttca--tatgattcccatgagatgatatttttgacgaactaaactagtgctattgttgcaatgcgtcatctaatctataggatgaattttgacagGTGATAAACATGGAGTGGGGGAATTTCTGGTCATCACATTTGCCTAGGACTTATGTGGATGAATCCTTGGATAACGAGAGTTTGAACCCAGGAGAATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaagactgattcttctatttattatttgacttcatgtcatcttccattcgttagGTTGTCAACATGGAATGGGGAAATTTCTGGTCATCACATTTGCCAAGAACATCTTACGATATTGATTTAGATGGTGATAGTCCTAATCCAAATGATCAG
                                        tcttccattc  CT-rich tract
       tgattcttctatttat  TA-rich tract