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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggagatcatgatcctctttggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG

Basic information

species Vitis vinifera
transcript Vv08s0056g00200.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os05g40420.1 (Oryza sativa), 3'ss of exon 4
------------------gtatgttttgttgttgaattctattaccttgtgattggatatagttttgta-----tttcccaggggagatcatgatcctctttggctt------tttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
                   |||  |||| | |    || |||    |   |     || |   |||  |     ||   | |   ||    | || || |||| |||      || || ||   |||| ||  | || || || |||| |||||| || |||| ||||||||| || || ||||||||||| |||||||||||||||||  | || ||||| ||||
gtataaaagtactcttttctatagtttgctatcatcttgtatagtatgaggcactaatgtttctttacaacatgttgatctgtccagtatctaattctttttgtcttttgtcattcctgtttatagTTGCTCCTGAATGGTGCAAGTGCGAATGGAGCGAAAAAAATCCGTGTTCACATTCTTACTGATGGACGTGATGTTTTGGATGGCACAAGCGTTGGTTTTG

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g60190.2 (Oryza sativa), 3'ss of exon 3
gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggagatca---tgatcctctttggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
|| ||||  | |  |||    |    |||| |  |   || | ||| | ||||| |         | |   || |    | ||  |   ||| ||  ||| | ||| | ||||| || |||||||  || ||||||||||| ||||| || || ||||||||||| || ||||||||||||||   ||||||||| ||||
gtttgttaagct-ctgatgaatggcgccttatattgcaatgt-gttgtttatttactgtcaatttttaaattggtgtgttctgtttcactctattt-cagCTGCTTCTGAAAGGTGCCAGTGAGAGGGGAGCAAAAAGAATTCGTGTTCACATTCTTACTGATGGACGCGATGTTTTGGATGGCAGCAGTGTTGGTTTTG

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G833389_T02 (Zea mays), 3'ss of exon 4
gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggag--atcatgatcctctttggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
         |||    |||  | || | |    |||     | |||  ||   | |||   ||   |  || ||  | || ||  | |   |     |||||||| | ||||| |  |||||||  || || |||| ||||||||| || |||||||||||||| |||||||||||||||||   |||| |||| || |
---------gtttgctaatattctttcttca--atttagcctggttcagttactgccacaagatttactataatttttttggggctctatcc-----agTTACTTCTGAAAGGTGTCAGTGAGAGAGGGGCGAAAAAAATCCGTGTGCACATCCTTACTGATGGACGTGATGTTTTGGATGGAAGCAGTATTGGTTTCG

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G833389_T01 (Zea mays), 3'ss of exon 4
gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggag--atcatgatcctctttggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG-----------------------------------------------------------------------------------------
         |||    |||  | || | |    |||     | |||  ||   | |||   ||   |  || ||  | || ||  | |   |     |||||||| | ||||| |  |||||||  || || |||| ||||||||| || |||||||||||||| |||||||||||||||||   |||| |||| || |                                                                                         
---------gtttgctaatattctttcttca--atttagcctggttcagttactgccacaagatttactataatttttttggggctctatcc-----agttacttctgaaaggtgtcagtgagagaggggcgaaaaaaatccgtgtgcacatccttactgatggacgtgatgttttggatggaagcagTATTGGTTTCGTGGAGACCCTAGAGAATGATCTTTTGGAGCTTAGAGCGAAGGGTGTTGATGCACAAATTGCATCTGGTGGTGGAAGGATGTATGTTACG

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G003385_T02 (Zea mays), 3'ss of exon 4
gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggagatcatgatcctctttggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
      |||| |  | |  | ||||   ||   ||| | || ||||       | |||        || |||   ||||   ||  ||| |   ||||||||| | ||||| |  |||||||  || ||||||| ||| ||||| || |||||||| ||||||||||| |||||||||||   ||||||||| || |
-----gtttgctaataatctttattcaatttatattagtta-agttacaagcgtacca--------caagatttacttttatttgctctatc--cagTTACTTCTGAAAGGTGTCAGTGAGAGAGGAGCAAAAAAAATTCGTGTGCACATCCTTACCGATGGGCGTGACGTTTTGGATGGCAGCAGTGTTGGTTTCG

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G40690.1 (Glycine max), 3'ss of exon 3
gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggagatcatgatcctctttggct--ttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
                      ||||  ||| | |||||  |  ||||   | |           |  | || || | |  ||   | | | |   |||||  |  | ||||||| ||| |||   ||||  |||||| ||||||||||||| ||||| ||||| |||||||||||||||||||| ||||| |||||||
-------------------gtgattat-ttggggttggagttgtttttccttcttgtgtatacagt--ttattctttctaactaagtatttttgtacagTTGTTGCTTAAAGGAGTTAGCGAGCGAGGTGTTAAAAGAGTCCGTGTCCATATTCTTACAGATGGCCGTGATGTTTTGGATGGTTCAAGTGTGGGGTTTG

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G45120.1 (Glycine max), 3'ss of exon 4
gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggagatca--tgatcctctttggctt-tttctcttg-gcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
                      ||||  ||| | |||||  |  ||||        || | |   |||  | || || | |  ||   | || |||  |||||  |  | ||||||| |||||||   ||||  |||||| ||||||||||||| ||||| ||||| ||||||||||||||||                  
-------------------gtgattat-ttggggttggagctgttttt----ccttcatgtgtattcagtttattctttctaactaactacttttgtacagTTGTTGCTTAAAGGAGTTAGTGAGCGAGGTGTTAAAAGAGTCCGTGTCCATATTCTTACAGATGGCCGTGATGTTTTGGATG------------------

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G08590.2 (Arabidopsis thaliana), 3'ss of exon 2
gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggagatcatgatcctc--tttggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
               | | |  |||  | | || |      |  ||||| |        |   | | ||  || |   ||||| | | | |  || ||||| ||  | || ||   |   ||   |||||| || |||||||| |||||||| ||||||||||| |||||||||||||||||||| ||||| || ||||
---------------gtacttaattctcatctgttacacatttcttttgaaacgttggcgtttgttaattttctttaatttggttctgtttggtg-cagTTGCTGCTTAAGGGTTTTGCAGAACGTGGTGCTAAGAGAATCCGCGTCCATATTCTTACTGATGGTCGTGATGTTTTGGATGGTTCTAGTGTCGGATTTG

upper sequence: Vv08s0056g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G09780.1 (Arabidopsis thaliana), 3'ss of exon 2
-gtatgttttgttgttgaattctattaccttgtgattggatatagttttgtatttcccaggggagatcatgatcctctt-tggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
  | || |||| | | |   |  ||||  ||||  |   ||   | |||    ||    |  ||   | | | | | || | |||||| |     ||||||  |  | |||||| ||  |||   |||||| || |||||| | |||||||| ||||||||||| |||||||||||||||||||| |||||||| ||||
gttttgatttgatat-gttcttcattattttgt--tcaaattctggtttaatgtttgttgatgattccttaaacttgttgttgcttttgc-----gcagTTGTTGATTAAAGGATCTGCTGAACGTGGTGCTAAGAGAATCAGAGTCCATATTCTTACTGATGGTCGTGATGTTTTGGATGGTTCTAGTGTTGGATTTG

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|110418028|gb|EC984140.1|EC984140
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|71858573|gb|DT007628.1|DT007628
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCNNNNNNNNTCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|110732942|gb|EE108671.1|EE108671
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|294965964|gb|GW839303.1|GW839303
EST:     TTGGGTTGTTGAGTGATGGTGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|110731939|gb|EE106787.1|EE106787
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|29785096|gb|CB341824.2|CB341824
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|110720962|gb|EE097416.1|EE097416
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|110357218|gb|EC920600.1|EC920600
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|71881840|gb|DT030895.1|DT030895
EST:     GTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: GTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|161715825|gb|FC067428.1|FC067428
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|110718255|gb|EE094880.1|EE094880
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|110721142|gb|EE097804.1|EE097804
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGACCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|33409359|gb|CF214986.1|CF214986
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
EST: gi|110723612|gb|EE101122.1|EE101122
EST:     TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAA                         TTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT
genomic: TTGGGTTGTTGAGTGATGGCGGTGTCCACTCCCGTATTGATCAGTTGCAAgtatgttttg ... ctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttgtatttcccaggggagatcatgatcctctttggctttttctcttggcagTTACTTTTAAAAGGAGCTAGTGAGAATGGTGCAAAAAGAATCCGTGTCCATATCCTTACTGATGGGCGTGATGTTTTGGATGGTTCCAGTGTTGGGTTTG
                             tcctctttggcttttt  CT-rich tract
     tgtattt  TA-rich tract