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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc...

Basic information

species Vitis vinifera
transcript Vv12s0178g00200.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os01g73310.1 (Oryza sativa), 5'ss of exon 2
----AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatt-tcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
    |   | ||| | ||||| || |  |||||||||||||||||||| ||||||||||| |||||||||||||||||  |  | ||  |||| |  |   || || |  ||  | |  |    ||||| || |    ||         |    ||||| ||               
AGTAAATCTATAGGAAATGGCTGACGGTGAGGATATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAGgtcaggaacttcatcttttaaaccatctatcatctc-caagactccaactgcatttttaccaatttgaattccttaaaattttgcag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os03g61970.1 (Oryza sativa), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
            |||||||| |  |||||||||||||| ||||| ||||||||||| ||||||||||||||||||||    |||| |    || |      |  ||  |   ||  ||     | ||||| | | | |      ||   | | | ||   |   | |     
--------ATTAATGGCCGACGGTGAGGATATCCAGCCACTTGTATGTGACAATGGCACTGGAATGGTCAAGgtttgattcttatacca--ttgtccattcgttttttttaattcatggaatgagttgttcaaaaataa-----taataactct-cactctctctctag---

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os11g06390.5 (Oryza sativa), 5'ss of exon 2
---AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgt--cagttattcttatttatttcaatg-agttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
     ||   || | ||||| || | |||||| |||||||| ||||||||||||||||||||||| |||||||||||| ||     | |||| || | |||||  || ||    |||     ||| |     || ||  ||      |||||    | || | || ||          
AACCAGTAGGAGGAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTGTGTGACAATGGAACTGGCATGGTCAAGgttcgtggtgctcattcgtagt-atttctttgtagcagttatccccatgtttatg--tgatttaatcgtatactttacttttcttgcgaattgctggcag---

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 5'ss of exon 2
-----------AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgt--cagttattcttatttatttcaatg-agttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
             ||   || | ||||| || | |||||| |||||||| ||||||||||||||||||||||| |||||||||||| ||     | |||| || | |||||  || ||    |||     ||| |     || ||  ||      |||||    | || | || ||          
GAATTCAGAACCAGTAGGAGGAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTGTGTGACAATGGAACTGGCATGGTCAAGgttcgtggtgctcattcgtagt-atttctttgtagcagttatccccatgtttatg--tgatttaatcgtatactttacttttcttgcgaattgctggcag---

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os01g64630.1 (Oryza sativa), 5'ss of exon 2
-AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaa-----tgagttcatatgtttg---tgtctgcacttgttta-----gataaagggctttagggattttacaaaatgaatttgactc------------
 |    ||    |||||| || |   |||||||||||||| |||| ||||||||||| |||||||||||||||||| || | || | ||       |  ||     | |||||  |   |||   |||    | |   ||      | |||     ||   | |    || || |||   |  ||             
AAACACTTGAGGGATGGCTGAAG---AGGATATCCAGCCTATTGTCTGTGACAATGGCACTGGAATGGTCAAGgttagttaattttcctgccacgctgtaaaactgttagttcgcacaattgggatgttcagattctcttttgcctgctaatacatttgtagcacccaacgaattgatcatttcttcatgtggaatag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os05g01600.1 (Oryza sativa), 5'ss of exon 2
--AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttg--tcagttattcttatttatttcaatgagttcatatgtttgt-gtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
      | ||| | ||||| || |  ||||| |||||||||||||| ||||||||||| ||||||||||||||||| ||  |   || ||||| |||| |   | |   |   |||| ||| |||| |   ||  ||  || |   | |||   |||| |  |  |           
CTCTTCTGTAGGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAGgtctgattttctttttcttttttactcttacgtaatgtaatgtatgtcgtctcctgctgaatat-tacattacattac--atttcatcatgtag---------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttg--tcagttattcttatttatttcaatgagttcatatgtttgt-gtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
          | ||||| || |  ||||| |||||||||||||| ||||||||||| ||||||||||||||||| ||  |   || ||||| |||| |   | |   |   |||| ||| |||| |   ||  ||  || |   | |||   |||| |  |  |           
---------GAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAGgtctgattttctttttcttttttactcttacgtaatgtaatgtatgtcgtctcctgctgaatat-tacattacattac--atttcatcatgtag---------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os05g36290.2 (Oryza sativa), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
|   | |  |  ||||| ||   ||||||||| || ||| ||||||| |||||||| |||||||||||||||||   |    |   |||| |  |||||   |     ||||||  |      |  |     ||| |    | | | |  ||| |||               
AACATCTGAAGAATGGCTGA---CGAGGATATTCAACCTATTGTGTGCGACAATGGCACTGGAATGGTCAAGgtggttatcctgaacttagtcttttcagcaaagcggtatgttcct---catagcttaacggatcaccttcctaatg--tttaacag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os10g36650.1 (Oryza sativa), 5'ss of exon 2
--AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgt--ttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc-----------
    |||  |  | ||||| || || ||||| || ||||| ||||| |||||||||||||| ||||||||||||||  |    ||| ||   |    ||  || ||       |  ||| |  |||    |  |||     |    |     | |  |  |  || || |    ||           
ATCAGTTAAAATAAATGGCTGACGCAGAGGACATTCAGCCCCTTGTCTGTGACAATGGAACCGGAATGGTCAAGgtaataaaaagtgatgacttggcatcgcattgttgaacaaaatttctacctgatggtaattattgttacaattgagaagctcatcaagtattaactgttttcatttttcatag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G053299_T01 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc---
            ||||| || |  |||||||||||||| ||||||||||||||||| |||||||||||||||||| |      || ||  ||   |  |    ||||||   ||  | |||| |     | |    |   | |  ||       |    |||  | |  ||    
--------ATCAATGGCTGACGGTGAGGATATCCAGCCACTTGTGTGTGACAATGGCACTGGAATGGTCAAGgttcg------atgctcgttctatctaccatgttcattcattcatctctgaaacctgtaaaggcagttgttgcagaatgaccagcccatgcttctctctgcag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
--------------AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
              |   | ||| | ||||| || | |||||| |||||||| ||||| ||||||||||||||||| |||||||||||||||   |  |  | |      |  |||       |  ||  | | |  | ||  | | || |    ||   || |                      
TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgttaatttaatcacatcacaaactactggcag---------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G126010_T02 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattctta--tttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
      | ||  ||||| ||   |||||||||||||||| | || ||||||||||| ||||||||||||||||||  |   |  |||  |  | | || |||  |    |    | |    |||        | | |      ||        ||||||               
------TTGAGAATGGCTGA---CGAGGATATCCAGCCTATCGTATGTGACAATGGCACTGGAATGGTCAAGgttgttatctcgttcagaagtcttttccaacaaagcaac---tctactcctgtgacctaattgttgctcaactcctcaatatttacag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G126010_T03 (Zea mays), 5'ss of exon 1
-------------------------------AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattctta--tttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
                                  |  | ||  ||||| ||   |||||||||||||||| | || ||||||||||| ||||||||||||||||||  |   |  |||  |  | | || |||  |    |    | |    |||        | | |      ||        ||||||               
TGTACTGAACGCTGAACTTTGGTCTGTTACAGAATAGTTGAGAATGGCTGA---CGAGGATATCCAGCCTATCGTATGTGACAATGGCACTGGAATGGTCAAGgttgttatctcgttcagaagtcttttccaacaaagcaac---tctactcctgtgacctaattgttgctcaactcctcaatatttacag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G126010_T01 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattctta--tttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
   |  | ||  ||||| ||   |||||||||||||||| | || ||||||||||| ||||||||||||||||||  |   |  |||  |  | | || |||  |    |    | |    |||        | | |      ||        ||||||               
-AATAGTTGAGAATGGCTGA---CGAGGATATCCAGCCTATCGTATGTGACAATGGCACTGGAATGGTCAAGgttgttatctcgttcagaagtcttttccaacaaagcaac---tctactcctgtgacctaattgttgctcaactcctcaatatttacag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T13 (Zea mays), 5'ss of exon 2
-AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
 || | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| |||||||||||||||||    |||      |   | | ||  |  |  |  ||  |     | |||   |  |||  |   |   |||||                         
CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgt----cagcccccgtccctgactttgacaacctt-tacttccaaatatgccactaattatgtct-gtcttttag-------------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G110378_T03 (Zea mays), 5'ss of exon 3
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
   | ||   | ||||| ||||  ||||| |||||||||||||| || |||||||| |||||||||||||||||  | |     | |    | |   | |  | || || |||       |         ||    |     | |  | |  ||  |   |   | |     
--TTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccccctcccccctgaccccca--acttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactct---tctag---

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T12 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
   | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| |||||||||||||||||    |||      |   | | ||  |  |  |  ||  |     | |||   |  |||  |   |   |||||                         
--TTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgt----cagcccccgtccctgactttgacaacctt-tacttccaaatatgccactaattatgtct-gtcttttag-------------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G110378_T01 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
          | ||||| ||||  ||||| |||||||||||||| || |||||||| |||||||||||||||||  | |     | |    | |   | |  | || || |||       |         ||    |     | |  | |  ||  |   |   | |     
----------AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccccctcccccctgaccccca--acttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactct---tctag---

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
---AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
         ||  | ||||| || |  ||||| || ||||| ||||| ||||||||||||||||| |||||||||||||||      ||||| || ||     | | |||||||  |     ||     || | |  |||    |    |   | ||||||| |    ||| |  
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtag----ttcttgttcatgctggt-acttcatattctgcaacctttttctgctaatttaat---cacacgttttcttacaaacta---ttggcag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G126190_T03 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
      ||  | ||||| || |  ||||| || ||||| ||||| ||||||||||||||||| |||||||||||||||      ||||| || ||     | | |||||||  |     ||     || | |  |||    |    |   | ||||||| |    ||| |  
------TAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtag----ttcttgttcatgctggt-acttcatattctgcaacctttttctgctaatttaat---cacacgttttcttacaaacta---ttggcag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T09 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
          | ||||| ||||  ||||| |||||||||||||| || |||||||| |||||||||||||||||    |||      |   | | ||  |  |  |  ||  |     | |||   |  |||  |   |   |||||                         
----------AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgt----cagcccccgtccctgactttgacaacctt-tacttccaaatatgccactaattatgtct-gtcttttag-------------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T11 (Zea mays), 5'ss of exon 1
----------------------------AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
                            || | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| |||||||||||||||||    |||      |   | | ||  |  |  |  ||  |     | |||   |  |||  |   |   |||||                         
ATGATTCTATCCATATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgt----cagcccccgtccctgactttgacaacctt-tacttccaaatatgccactaattatgtct-gtcttttag-------------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G053284_T01 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
      |     ||||| || |   ||||| ||||||| |||||||| |||||||| ||||||||||| |||||| ||       || | |  |   ||   | | | | ||  ||| | | || ||  | |  |||    ||   ||||| ||   |    ||   |    
-AACACTGAGGAATGGCTGAAG---AGGATGTCCAGCCCCTTGTGTGCGACAATGGCACTGGAATGGTTAAGgttcgtt-----ctcctgtccag--cagccaatccttttgcctgtctattca-ttactgatctaataaactgatgggatcttg--atgccaaacag----

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T04 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
   | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  | |  ||   | |   |  | |||        ||| |     | |||   |  |||  |   |  ||||||                         
--TTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctgacttgtacaac----ctttatttccaaatatgccactaattatgtct-gtcctttag-------------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G030169_T03 (Zea mays), 5'ss of exon 1
---------------------------AGGTTTTAGA-AGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgt-----ttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
                              ||| | | | ||||| || || ||||| || ||||| || || |||||||||||||||||||||||||||||     | |||  ||    | || |  |  ||||| | |   | ||     | ||  ||   |    |       ||| | | |||    |     | |     
ATTGTTTTCATTCATGCAGATTGCAGATCATTTAACATAAATGGCTGACGCAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaactgtagtcgcttggcatcatattctctaatgattcctctttttccatacagcttttagattttcagtcaatgttaagcactttttccatctcttatag---

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
----------------------------AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
                            || | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  | |  ||   | |   |  | |||        ||| |     | |||   |  |||  |   |  ||||||                         
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctgacttgtacaac----ctttatttccaaatatgccactaattatgtct-gtcctttag-------------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G104017_T04 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
   | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  ||  | | |||   || ||||  |      ||||   |        ||  | |     |||     | ||   || ||  |               
--TTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagt--gcttttccccttaatttgtacag--ccatagtctcccccacccaaatatgccactaattttgtgtatctatcttctag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T02 (Zea mays), 5'ss of exon 2
-AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
 || | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  | |  ||   | |   |  | |||        ||| |     | |||   |  |||  |   |  ||||||                         
CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctgacttgtacaac----ctttatttccaaatatgccactaattatgtct-gtcctttag-------------------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067985_T06 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagg--gattttacaaaatgaatttgactc---
   | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  | |  ||   | |   |  | |||        ||| |     | |||   |  |||  |   |  |||||||  | |||| |         |  ||     
--TTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctgacttgtacaac----ctttatttccaaatatgccactaattatgtct-gtcctttaggctggttttgctggggacgatgcaccaagg

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
          | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  ||  | | |||   || ||||  |      ||||   |        ||  | |     |||     | ||   || ||  |               
----------AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagt--gcttttccccttaatttgtacag--ccatagtctcccccacccaaatatgccactaattttgtgtatctatcttctag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G104017_T03 (Zea mays), 5'ss of exon 2
-AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
 || | |    | ||||| ||||  ||||| |||||||||||||| || |||||||| || ||||||||||||||  ||  | | |||   || ||||  |      ||||   |        ||  | |     |||     | ||   || ||  |               
CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagt--gcttttccccttaatttgtacag--ccatagtctcccccacccaaatatgccactaattttgtgtatctatcttctag--------------

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 2
--------AGGTTTTAGA-AGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgt-----ttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc------
           ||| | | | ||||| ||  | ||||| || ||||| || || |||||||||||||||||||||||||||||     | | || ||    | || | | ||      ||| | | |||  | | ||  || |  |  |||    |  | |   ||    |   |        |||      
ATTGCAGATCATTTAACATAAATGGCTGACTCAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtggccacttggcgtcatat-tctctgcagattcctttttttcaggcagcttttata-atttaattttcagtcgatgttcattattttccccccatctcttatag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 2
--------AGGTTTTAGA-AGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgt-----ttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc
           ||| | | | ||||| || || ||||| || ||||| || || |||||||||||||||||||||||||||||     | |||  ||    | || |  |  ||||| | |   | ||     | ||  ||   |    |       ||| | | |||    |     | |     
ATTGCAGATCATTTAACATAAATGGCTGACGCAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaactgtagtcgcttggcatcatattctctaatgattcctctttttccatacagcttttagattttcagtcaatgttaagcactttttccatctcttatag---

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA15G05570.1 (Glycine max), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtt-----------tgtcagtt----attcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttag-ataaagggcttta-gggattttacaaaatgaatttgactc-----------
  |||||| |||||||| ||||| ||||| || || ||||||||   ||| ||||||||||||||||||||||||           || || ||    | | ||  || |  || |||       ||||    ||||  |||| |||| ||  |  | |  |   ||| ||   | ||  ||||  |||           
--GTTTTAAAAGATGGCTGATGCTGAGGACATTCAACCTCTTGTTGTTGATAATGGAACTGGAATGGTCAAGgttagaagatgttttgccaattgatgagtgtttcttgtgccattgaagaagactgttcac-tctgtgcttgcttagtattcattgttaaatatgatattgatatatatatttttctcgatgtttgcag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 2
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc------------------------
  |||||| || ||||| ||||| ||||| || || ||||||||   ||| |||||||||||||||||||||||| |      ||  || ||    |  |||||| | |    |||||     | |    |||| |    ||| |  |  |  |  || ||||  || |                           
--GTTTTAAAAAATGGCTGATGCTGAGGACATTCAACCTCTTGTTGTTGATAATGGAACTGGAATGGTCAAGgttag---aacatgttttttccaattgatgagtgctt---cttgtgct---attgaagtagacagttcgctctgtgcttgcttaaatatgatattaatatatattttttctccaatgtttgcag

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S381_18V6.2 (Physcomitrella patens), 5'ss of exon 2
--AGGTTTTAGAAGATGGCCG---ATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttg-tcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc-----
    || ||| |  ||||| |   | |  |||||| | |||||| | ||||| ||||||||| |||||||||||||||| || || ||    |  |||    ||||| |  ||||   |    |||||       |||    | |  || |     |  |   |||| | ||  | ||     
GTCCGTATTAAATAATGGCAGGAGAAGGTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctgtccgacgcattgtactcaatca-ctcatccttcctggtctgt-----cttaagagaggccctatttcactgctcttaaataagttgaagtcgctat

upper sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 3
--AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggatttta---caaaatgaatttgactc--
   ||| |||  | ||||| || |  |||||  | |||||  | ||||| ||||||||||||||||||||||||||  |   || | |||| |  |   ||  || || |  | |  |    ||   |  ||    | ||||  | ||     || |        ||||    | ||  
GTCGGTATTAAGAAATGGCTGACGGTGAGGAAGTACAGCCCTTGGTGTGCGACAATGGAACTGGAATGGTCAAGgtgag---gtcactcttctaaaacccagaga-ttaacttttccgaacttg-gttcattggattcaaggattctataatcttgagcttctgctgaaaaatattcta

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|110365371|gb|EC928252.1|EC928252
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|37183457|gb|CF602811.1|CF602811
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|161711336|gb|FC059109.1|FC059109
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTC
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|161716641|gb|FC065562.1|FC065562
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTC
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|71885906|gb|DT034961.1|DT034961
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTC
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|161713214|gb|FC063658.1|FC063658
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTC
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|110700325|gb|EE078233.1|EE078233
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|37185060|gb|CF604413.1|CF604413
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|110718999|gb|EE096472.1|EE096472
EST:     GGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
genomic: GGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|110724122|gb|EE099673.1|EE099673
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|30251740|gb|CB969473.1|CB969473
EST:     GGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTC
genomic: GGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT
EST: gi|161714645|gb|FC064228.1|FC064228
EST:     CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTC
genomic: CCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagt ... aaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc

- - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gataaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatga