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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctgattttgaaagatttatagaccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcag

Basic information

species Vitis vinifera
transcript Vv17s0000g06640.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA17G11100.1 (Glycine max), 5'ss of exon 12
TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctga-ttttgaaagatttatagaccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcag
|| ||||||||| ||||||| |||||  | |||||||| ||||||||||||||| | ||||||||||| ||||| |||||||| ||||| | |||| | |  || ||||| || |||| | |   | ||| |   ||            || | | ||   || || |   || ||| || |||||
TTTTTTCTGGAGTTGATGAAGGTGCCAAGGGTGGAGTCAAAATTAAGAGTATTTGCATTCAAGATTCAGTTTGGTTCTCAGgtctggtgatgtctgtaatatttttctgacttctgaatgttcggtggacttggctt-----------tttccttcagatatcatact---ttgcttgttatgcag

upper sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA04G32990.1 (Glycine max), 5'ss of exon 13
TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctgattttgaaagatttatagaccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcag
|  ||| |||||||||||||||||||  | |||||||| ||||| |||||||| || ||||||||||| ||| |  |||||||||| || | || | | || || ||||| ||||       | | |   || |||| | |  | |  |   ||| || |                         
TATTTTTTGGAGCTGATGAAAGTGCCAAGAGTGGAGTCAAAATTCAGAGTATTCTCTTTCAAGATTCAGTTTAGGACTCAGgtttgctgttgtcagtaatgtttttctgaatttgctgtggatttgg---ttttttgcatatcttatttccactttgcag-------------------------

upper sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA05G00820.1 (Glycine max), 5'ss of exon 10
TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctga-ttttgaaagatttatagaccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcag
|| ||| ||||| ||||||| |||||  | |||||||| ||||||||||||||| | ||||||||||| |||   |||||||| ||||| | |||| | |  || ||||| || |||| | |   | ||  |   ||            || | | ||   || || |   || ||| || |||||
TTTTTTTTGGAGTTGATGAAGGTGCCAAGAGTGGAGTCAAAATTAAGAGTATTTGCATTCAAGATTCAGTTTAATTCTCAGgtatggtgatgtctgtaatatttttctgacttctgaatgttcagtggatttggctt-----------tttccttcagatatcatact---ttgcttgttatgcag

upper sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA06G21190.1 (Glycine max), 5'ss of exon 12
TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctga---ttttgaaagatttatagaccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcag
|  ||| ||||| |||||||||||||  | |||||||| ||||| ||||| || || ||||||||||| ||| |  |||||||||| || | |||| | || |  |||||   ||||    |||||      |||  ||| | |  | |  |   ||| || |                         
TATTTTTTGGAGGTGATGAAAGTGCCAAGAGTGGAGTCAAAATTCAGAGTTTTCTCTTTCAAGATTCAGTTTAGGACTCAGgtttgctgttgtctgtaatgttcttctgaatttttttttggatttg-----ctttcttgcatatcttatttccactttgcag-------------------------

upper sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT5G07780.1 (Arabidopsis thaliana), 5'ss of exon 6
---------TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctgattttgaa-------agatttataga--------ccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcag-----------------
         | ||| |  ||| |  |||| ||||| || || || || ||  | |||||||||||||||||||||||||||||  ||||||| |||||||||    |    | || | |||||           | | | | ||          ||  ||  |  |||||   |   ||     ||   || ||||  || ||||  |                  
CTATTCCAGTACTTACAAGAGGTAGTGAAGGTGCCACGAGTAGAATCAAAGCTGAGAGTATTTTCCTTCAAGATTCAATTTGGCACTCAGgtctggtggtattattacctataatgttattttctgtctatctggttctttggagaaaatatttttggtttcatcagtaactgtagattcttgatcccttttttttttttttttttaaatgatgattactttgcag

upper sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT5G07650.1 (Arabidopsis thaliana), 5'ss of exon 20
-------------------TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctgattttgaaagatttatagaccttctttgaacaagtaagctt---gccttagc--cgtcttattgttttacttattttgcag---------------------------------
                   | ||| || ||| | ||||| |||||  | || || || ||  | |||| ||||||||||||||||||||||||  ||||||| |||||||||    |    | || | |||||      | |||     |  || ||  ||  ||  ||   |  ||| |   |||| | |   | |  ||  ||   |                                 
TCCTTCACTCACACCGCAGTACTTCCTAGAGGTAATGAAGGTGCCAGGAGTAGAATCAAAGCTGAGAGCATTTTCCTTCAAGATTCAATTTGGCACTCAGgtctggtggtattattacctataatgttattttctg---tctatctggttctttggaggaataaaagttatggttttatcagtgtctaagtagctcatgtagattcttgatacctttttttataatgatgattactttgcag

upper sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT5G07650.1 (Arabidopsis thaliana), 5'ss of exon 6
TTCTTTCTGGAGCTGATGAAAGTGCCCCGTGTGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggtatctgcattggttatctgattttgaaagatttatagaccttctttgaacaa-gtaagcttgccttagccgtcttattgttttacttattttgcag
| ||| || ||||| ||||| ||||| ||  | ||| | ||  | ||||||||||||||||||| |||||||||  || ||||  || |||       |  ||||||||||| |         |  |   |  ||| | ||  ||     |  ||      ||||  |  | |  ||| | |||||
TACTTACTAGAGCTAATGAAGGTGCCACGACTTGAGGCAAAGCTTAGAGTATTTTCCTTCAAGACTCAATTTGGCACTAAGgtccggcggt-------tctgttatctgattctttggaggaaaacgttttggttttaccagcgtctatgtaactgtatattcttggttctgttgttactgtgcag

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|110700830|gb|EE077830.1|EE077830
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|110700821|gb|EE077821.1|EE077821
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|37184855|gb|CF604209.1|CF604209
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|110700879|gb|EE077921.1|EE077921
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|110700824|gb|EE077817.1|EE077817
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG