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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaatattttcagactcatgattaataaatctaataatttgacatagtctgtgattgtaatcaaacctattgggtcttaacttggtcactaaacatgaaaaatcaatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACTGCTGTGTCGATCGTTGATGCCATGAAGTCTCTAGTAACTCCCACCCCTG

Basic information

species Vitis vinifera
transcript Vv13s0019g05250.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g05250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G33380.1 (Glycine max), 3'ss of exon 11
gcaatattttcagactcatgattaataaatctaataatttgacatagtctgtgattgtaatcaaacctattgggtcttaacttggtcactaaacatgaaaaatcaatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACTGCTGTGTCGATCGTTGATGCCATGAAGTCTCTAGTAACTCCCACCCCTG
         | |   |  | ||||  | |  ||   |  | |||| || |   |   ||   |      ||| |    ||  ||   | |||   |      |  || |  ||||||||||||| | | ||||| |||||||| ||||| || |||||||||||| ||||||| || ||||||||||| |  ||| |||||||||| || || |
--------gtaaattttgtaattagcatacatagctaaat-acatggtgtaaaaagatatgtagtttccttgtgctgaaagctgacaagtaattgtttgt--ttgat-tggcagAGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACTTCTGTGTCAATTGTTGATGCCATAAGATCTTTAGTAACTCCTACTCCCG

upper sequence: Vv13s0019g05250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G34150.3 (Glycine max), 3'ss of exon 9
gcaatattttcagactcatgattaataaatctaataatttgacatagtctgtgattg-taatcaaacctattgggtcttaacttggtcactaaacatgaaaaatcaatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACTGCTGTGTCGATCGTTGATGCCATGAAGTCTCTAGTAACTCCCACCCCTG
         | | | |  |  |||         |||  |  | | |   ||| |  | ||   |      ||| |    ||  ||   | |||   |      |  || |  |||||||||||||   | ||||| |||||||| ||||| || |||||||||||| ||||||| || ||||||||||| |  ||| |||||||||| || || |
--------gtaaaatttgtagttagcg---tccatagctaaatacatgatgtaaaagatatgtagtttccttgtgctaaaagctgacaagtaattgt------ttgat-tggcagAGAGGTGGTGCACTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACTTCTGTGTCAATTGTTGATGCCATAAGATCTTTAGTAACTCCTACTCCCG

upper sequence: Vv13s0019g05250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G34150.2 (Glycine max), 3'ss of exon 9
gcaatattttcagactcatgattaataaatctaataatttgacatagtctgtgattgtaat-caaacctattgggtcttaacttggtcactaaacatgaaaaatcaatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACTGCTGTGTCGATCGTTGATGCCATGAAGTCTCTAGTAACTCCCACCCCTG
         | | | |  |  |||         |||  |  | | |   ||| |  |  ||  |      ||| |    ||  ||   | |||   |      |  || |  |||||||||||||   | ||||| |||||||| ||||| || |||||||||||| ||||||| || ||||||||||| |  ||| ||                
--------gtaaaatttgtagttagcg---tccatagctaaatacatgatgtaaaagatatgtagtttccttgtgctaaaagctgacaagtaattgt------ttgat-tggcagAGAGGTGGTGCACTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACTTCTGTGTCAATTGTTGATGCCATAAGATCTTTA----------------

upper sequence: Vv13s0019g05250.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G58330.2 (Arabidopsis thaliana), 3'ss of exon 7
gcaatattttcagactcatgattaataaatctaataatttgacatagtctgtgattgtaatcaaacctattgggtcttaacttggtcactaaacatgaaaaatcaatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACTGCTGTGTCGATCGTTGATGCCATGAAGTCTCTAGTAACTCCCACCCCTG
            |    |||    ||   ||| |||||  || ||  | |     || ||| | |  || ||    ||  ||  || | |   | |      |   | || |||||||||||  | || ||||||||||||||  ||||||||||||| || |||||||| || || |||||||| || |||||||| |||||||| || ||||
------------gtaagatggc-gattcctctgataat--gaaatgattt----ctgcaatgagatataatg---ttttgctgagtaagtttgcgt------tttgttttacagAGAGGTGGGTTATTAATTCAGAAATGGGGTCGATCTTCTGCTGCTTCTACTGCTGTTTCCATTGTTGATGCTATAAAGTCTCTTGTAACTCCTACTCCTG

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|34550508|gb|CF518726.1|CF518726
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|34550427|gb|CF518645.1|CF518645
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|110725848|gb|EE102783.1|EE102783
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|30137894|gb|CB923232.1|CB923232
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|351040604|gb|FQ438148.1|FQ438148
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|110381192|gb|EC946513.1|EC946513
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|28963316|gb|CB342349.1|CB342349
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGGGGTGGTGTGTTGATTCAGAAATNNNNNNNATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|33402579|gb|CF208206.1|CF208206
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|110367124|gb|EC931047.1|EC931047
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|110392317|gb|EC957652.1|EC957652
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|351046814|gb|FQ454424.1|FQ454424
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|349811478|gb|FQ409474.1|FQ409474
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCCGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|32245213|gb|CD711032.1|CD711032
EST:     TCAAGGACATCAAATGGTGGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|18458671|gb|BM436949.1|BM436949
EST:     GTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: GTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|110393853|gb|EC959389.1|EC959389
EST:     TCTAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT
EST: gi|18458011|gb|BM436289.1|BM436289
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGAGNGTGGTGTGTTGATTCAGAA-TGGNGGGAGATCTTCTGCTGCATCAA
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAG-GTGGTGTGTTGATTCAGAAATGG-GGGAGATCTTCTGCTGCATCAA
EST: gi|29785366|gb|CB342287.2|CB342287
EST:     TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAG                         AGGGGTGGTGTGTTGATTCAGAAATNNNNNNNATCTTCTGCTGCATCAACT
genomic: TCAAGGACATCAAATGGTTGGAGGAGGAGTTCACTGAAAAAGTCCAGAAGgcaatatttt ... aatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcaaacctattgggtcttaacttggtcactaaacatgaaaaatcaatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACTGCTGTGTCGATCGTTGATGCCATGAAGTCTCTAGTAACTCCCACCCCTG
                           cactaaa  putative branch site (score: 2)
                              taaacatgaaaaat  TA-rich tract