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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattttttagttcaacatctataaatgttttgaggaaatgttttgttttctaggttggtatttagataatgttgtttattatggcctttatgttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC

Basic information

species Vitis vinifera
transcript Vv01s0010g02550.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g41100.6 (Oryza sativa), 3'ss of exon 6
gtgattttttagttcaacatctataaatgttttgaggaaatgttttgttttctaggttggtatttagataatgttgtttattatggcctttatgttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC
       |   || | ||  ||||   | |||| | ||     ||| | |  |   ||  |||||| ||| |    | |       ||| | |   || |||||| || |  |||| || |||||| |  | ||||| |||||||| ||||||||||| || ||||| || ||||||||||| || || |||||||   |||   
------gtaatgtgctactgctattttttttttcatga-----tttatatcatgcattcatatttaaatacttcaatctgagcacacctgttttggct-ttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCTCTACCTAAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAAT

upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G115755_T01 (Zea mays), 3'ss of exon 5
gtgattttttagttcaacatctataaatgttttgaggaaatgttttgttttctaggttggtatttagataatgttgtttattatggcctttatgttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC
                  |  |||| ||  | |   | |     |  || ||| | |    |||| |   ||||  || ||   | | | |   |||||| |||| | ||  | ||||  | |||  | |||||||| |||||||| ||||||||||| |||||    || || |||||||| ||||||||||||| | |||  |
----------------gtaa-tatacattctctagtgcaccacctgattctcttg-tacacattttgc--atgtccttaata--gacttgttccttctat-acagCGCATATCTGCTGCTGATGCCTTGAACCATGAGTGGTTCCGTGAAGTTCCTCTGCCCAAGATGAAGGAATTCATGCCAACTTTTCCTGCTCTGAATGAAC

upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G139038_T01 (Zea mays), 3'ss of exon 5
gtgattttttagttcaacatctataaatgttttgaggaaatgttttgttttctaggttggtatttagataatgttgtttattatggcctttatgttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC
           || |||| | ||      | |  |       |||  | ||||   ||   ||     |  |     |         |||  |  |||  ||||| | ||  |||| || | |||||| || ||  | ||||||   ||||||||||| || ||||| ||||| |||||||| || ||||||||||   |||  |
-----------gtgcaacttttac-----tctcaaatcggcatttgatattctta-ttatcatc--attcgtaccagtctgagcacacttgtttctcttgtacagCGCATATCAGCAGACGATGCTCTGAAACACAAATGGTTCTCTGAAGTTCCTCTGCCTAAATCAAAAGACTTCATGCCAACATTTCCTGCTCTTAATGAAC

upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G10810.1 (Glycine max), 3'ss of exon 4
gtgattttttagttcaacatctataaatgttttgaggaa-atgttttgttttctaggttggtatttagataatgttgtttattatggcctttatgttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC
                     || |  |    ||||  | |||  ||  |||         |||||   | |   | || ||    | | |  | || |||  ||| |||| || || |||| |||||| || ||||| |||||||| ||||||||||| ||||||  |||||| ||||||||||| ||||||||||| ||||| |
--------------------gtaaaggttacatgagctacatgaattaatttggtaacaaatatttgtctgaa--tattaatgtaagacctactattttat-gcagCGGATCACTGCCGAAGATGCTCTAAATCATGAGTGGTTCCGTGAAGTTCCTCTCCCCAAAAGTAAAGAATTCATGCCTACATTTCCTGCTCAACATGCTC

upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G27820.1 (Glycine max), 3'ss of exon 7
gtgattttttagttcaacatctataaatgttttgaggaaatgttttgttttctaggttggtatttagataatgttgtttattatggcctttatgttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC
               ||   ||| |   | |   | ||| |  |||| |   ||  |   | | |  |||       ||| |||      ||   | |  | ||| |||| || || ||||||||||| || ||||| ||||| || ||||||||||| ||||||  |||||| ||||||||||| ||||||||||| ||||| |
-------------gtaaaggctacatgagctac-atgaattaatttggtaaataaatatttttctgaata-------ttaatataagacctactattttatgcagCGGATCACTGCCGAAGCTGCTCTAAATCATGAGTGGTTTCGTGAAGTTCCTCTCCCCAAAAGTAAAGAATTCATGCCTACATTTCCTGCTCAACATGCTC

upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G67580.2 (Arabidopsis thaliana), 3'ss of exon 4
gtgattttttagttcaacatctataaatgttttgaggaaatgttttgttttctaggttggtatttagataatgttgtttattatggcctttatg--ttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC
         || |  || || ||||  ||||        |||  |  |  || ||  ||    |||  |  |  |     ||  |  || | ||  ||||  | ||||| || || | | | |  ||||| || |||||||||||||||||||| ||||| || ||||| ||||||||||||||||||||||||||||| |||||||
--------gtaatagaaaatatatatctgttgc------atgcatgttaatccagtatgcaccttaattgttccttgacttttggatctctgtggcttcttctgcagAGAATAACTGTTAATGAAGCTCTAAAGCATGATTGGTTCCGCGAAGTCCCTCTGCCAAAATCCAAAGATTTCATGCCTACTTTTCCTGCTCAACATGCCC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|30134929|gb|CB920267.1|CB920267
EST:     ACTCTGGATTTGACTTGTTGAACAAACTTTTAACTTATGACCCTGAGAAG                         AGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCT
genomic: ACTCTGGATTTGACTTGTTGAACAAACTTTTAACTTATGACCCTGAGAAGgtgatttttt ... tctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaggttggtatttagataatgttgtttattatggcctttatgttctattacagAGGATTACAGCTGAAGCTGCTCTTAACCATGATTGGTTCCGCGAAGTTCCTCTTCCCAAATCTAAAGATTTCATGCCTACTTTTCCTGCTCAGCATGCCC
                                            ttctatt  CT-rich tract
          tatttagataatgttg  TA-rich tract