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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcatacaccccacctacaagctgaaaccaaaattctcaatttatatcactatttatcaattatcaggaaatattcatatgtaatttcttgtatgtggattgcag

Basic information

species Vitis vinifera
transcript Vv02s0025g00240.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os04g48880.1 (Oryza sativa), 5'ss of exon 4
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgta---aatcatacaccccacctacaagctgaa---accaaaattctcaatttatatcactatt--tatcaattatcaggaaatattcatatg-taatttcttgtatgtggattgcag---
|||||||||||| |||||||||||||| |||||||| || ||||| ||||| |||||||| || || || ||  | ||   ||| ||  |||||||| | |||    | ||    |  | |    | | | |    ||||  | |   | |  |     ||| |  ||  | |    ||  | | | | | || | ||||  | | |||||     ||   
GGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTCCCCGTCGGCCCCATCGCGAATGTGCCCTACTTCCGGCGAGTGGCCGCGGCCCACAAGgtacgagaccaccagctgctcactgacgtttactgcaccactactactagtccacgctgctactactactactggctagagagtgtacttttgctgattttctttgtgtggccacgagcag

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os03g03370.2 (Oryza sativa), 5'ss of exon 4
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatc----atacaccccacctacaagctga-aaccaaaattctcaatttatatcactatttatcaattatcaggaaatattcatatgtaat---ttcttgtatgtggattgcag------
||| |||||||| |||||||||||||| |||||||| || ||||| || || |||||||||||||| || ||  | ||    || ||  | |||||||| ||    |       | | |||||||   || |   ||||    || |  | | |     | | |  |  |  |   ||| |  |   |  | ||   | ||||  ||    |           
GGCGTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTCCCGGTGGGGCCCATCGCCAACGTGCCCTACTTCCGGCGGGTCGCCGCCGCCCACCAGgtccggcccggtcgctctccacctaactgcagccgaccacgcatccctgtctctgagcttctcttgccgtggttctgaatttatgtgagctgatccatccttgcctgccattcattcttgcag

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os10g38940.1 (Oryza sativa), 5'ss of exon 3
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcatacaccc-----cacctacaa-gctgaaaccaaaattctcaatttatatcactatttatcaattatcaggaaa--tattcatatgtaatttcttgtatgtg-gattgcag----------
||| |||||||| |||||||||||||| |||||||| || ||||| || || |||||||  ||||| || ||  | ||   ||| ||| | |||||||| |||||  |||| |||     ||| ||||| |  |   |   |  |  || ||         |  | ||     || |  ||  | ||  |   | ||  ||  |||||  | || |            
GGCGTACATGTTCGTCCACGACGGCCTGGTCCACCGGCGCTTCCCCGTGGGGCCCATCGAGAACGTGCCCTACTTCCGCCGAGTTGCTGCCGCCCACCAGgtaaaa-atactcccagccacacgtacaacgacgcctcgtcagctgccacttgggcaggtgacatgtcgtcgctccgagaacctgttgtttgatgatgcctactatgtctggtttctttcttgtgtag

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G164318_T01 (Zea mays), 5'ss of exon 4
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcatacaccccacctacaagctgaaaccaaaattctcaatttatatcactatttatcaattatcaggaaatattcata-tgtaatttcttgtatgtggattgcag
|||||||||||| |||||||||||||| |||||||| || || || ||||| |||||||||||||| || ||  | ||   ||| ||| | || ||| | |||   ||   ||  |  | || ||  |  | | |    | |       | |||   |  |||    ||  |||   |   ||  ||   ||||  | ||          
GGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCAACGTGCCCTACTTCCGCCGAGTGGCTGCCGCTCACAAGgtacg-cacggacgacggcgacgagaggccagctagcgacccctcgctcaccacc--tcctcatccttctcgaagcttctgtagcgtgcattctactgtgcta-------

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G152135_T06 (Zea mays), 5'ss of exon 4
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcatac--accccacctacaagctgaa-------------accaaaattctca--------atttatatcactat--ttatcaattatcaggaaatattcatatg---taatttcttgtatgtggattgcag------------------------------------------------------------
|||||||||||| |||||||||||||| |||||||| || || || ||||| ||||||||| |||| || ||  | ||   ||| ||| |  | ||| | ||| ||  |||  ||  |  | || ||   |              ||| ||| |            || ||    ||| |   |   | |   |||| | ||   |  ||   | |  | || |   |   || ||                                                             
GGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCGACGTGCCCTACTTCCGCCGAGTGGCTGCCTCGCACAAGgtacatagtacttacgacggcgacgaggccagccacctctcgctcaccgaaacttctgtagcgtgcatctactgtactgtgcctgcaactgggcaggcagtaccgacctgagctgacatgtttttctttcttttcaccgcccttttgcgcgctggctggtgtggcgtggctgggctcctcggcgatgtcgcgagcag

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G398137_T01 (Zea mays), 5'ss of exon 4
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcatacaccccacctacaagctgaaaccaaaattctcaatttatatcactatttatcaattatcaggaaatattcatatgtaatttcttgtatgtggattgcag
|||||||||||| |||||||||||||| ||||||||  | || || ||||| |||||||||||||| || ||  | ||   ||| ||| | || ||| | |||   ||      | ||  | | ||         |  ||||  |      | |   | |||  |    | |      |   ||| | | |  ||||  || | |    
GGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCTGCTTTCCGGTCGGCCCCATCGCCAACGTGCCCTACTTCCGCCGAGTGGCTGCCGCTCACAAGgtacg-cacgagggcgacg-agaggccagctagcgacctctcgctcaccgcctcc--tcatccttctcgaagcttctgtagcatgcattctactgtac-tgtact----

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G382534_T01 (Zea mays), 5'ss of exon 4
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcatacaccccacctacaagctgaaaccaaa-attctcaatttatatcactatttatcaattatcaggaaatattcatatgtaatttcttgtatgtggattgcag
|||||||||||| || ||||||||||| |||||||| || ||||| ||||| |||||||  ||||| || ||  | ||    || ||  | ||||| || ||    |   | ||    || |   |  |  || |  || ||       | |  ||   | |    |   |     |  |  | ||    | | || |||  |       
GGCCTACATGTTCGTGCACGACGGCCTCGTCCACCGCCGTTTCCCCGTCGGCCCCATCGAGAACGTGCCCTACTTCCGGCGTGTCGCCGCAGCCCATCAGgt---ccgatcgccttctcttctgccccacccctatcatcctgcccccgtctgcctgcctgtgttgttgtaactgctgct-gtttgctgctgcctgcatgcag-------

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G090051_T02 (Zea mays), 5'ss of exon 3
GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcatacaccccacctacaagctgaaaccaaaattctcaatttatatcactatttatcaattatcaggaaatattcatatgtaatttcttgtatgtggattgcag
|||||||||||| || ||||||||||| |||||||| || ||||| ||||| |||||||  ||||| || ||  | ||    || ||  | ||||| || ||      | |  |     | |   ||   | ||   | | | || |   |  || | | |   | | |      |  |  |  |    | | || |            
GGCCTACATGTTCGTGCACGACGGCCTCGTCCACCGCCGCTTCCCCGTCGGGCCCATCGAGAACGTGCCCTACTTCCGCCGCGTCGCCGCCGCCCATCAGgtccgc--tgctgcttctgttctgccttctatcatcctgccccatctgcctgcctgtgttt--gtaaccgttgcctgctgct--gctgctgcctgcag-----------

upper sequence: Vv02s0025g00240.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EDO99380 (Chlamydomonas reinhardtii), 5'ss of exon 5
------------------------------------GGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCT-TATCTA-CGAAAAGTAGCTTCGGCCCACCAAgtaaatcatacaccccacctacaagctgaaaccaaaattctcaatttatatcactatttatcaattatcaggaaatattcatatgtaatttcttgtatgtggattgcag
                                     |||||||||||  ||||||||||||| || ||||| || ||||| || || ||||||||||||||   | | | |  ||     | |  | |||       |       |   |  |      | ||||         | ||     |    |  | | |                                                  
CTTCGGCGCGGGTCTGGGCATCACGCTGTTCGGCATCGCCTACATGTTCTTCCACGACGGCCTGGTGCACCGCCGCTTCCCCGTGGGGCCCATCGCCAACgtgagtgtgtgtgtcgggggctgggctgggctgggtgtgcttgggctgggctgcgtgc-taggctgggctgtgtgtgcttgggctg-ggcggtgtgtgcttg---------------------------------------------

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|26258277|gb|CA809340.1|CA809340
EST:     GACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAA                         CTTCATCACTCTGACAAATTTAATGGAGTTCCATACGGGCTGTTCTTGGGA
genomic: GACCCATCGCCAACGTCCCTTATCTACGAAAAGTAGCTTCGGCCCACCAAgtaaatcata ... tggattgcagCTTCATCACTCTGACAAATTTAATGGAGTTCCATACGGGCTGTTCTTGGGA