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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatagtttacaagggcttgtgcatgttcattatgcattttttctgtttcaattcttgcttgttcttctctgcttaccattatatattcatacataacgttagatttcttggttgtgccccatcttgactgagttgcaaattacatgttctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAATCCTGAGAGAGTTGGTACACCAACGAAGGATTTCAAGGCACTTTTTTCCC

Basic information

species Vitis vinifera
transcript Vv08s0007g00530.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g00530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G068244_T01 (Zea mays), 3'ss of exon 6
gtaatagtttacaagggcttgtgcatgttcattatgcattttttctgtttcaattcttgcttgttcttctctgcttaccattat-atattcatacataacgttagatttcttggttgtgccccatcttgactgagttgcaaattacatgttctctaac--cagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAATCCTGAGAGAGTTGGTACACCAACGAAGGATTTCAAGGCACTTTTTTCCC
      || || | |  ||    ||   ||  |||  ||     |||| | ||  | | || ||| |  | | |  |  ||  | ||  ||  |  |  | || ||   | ||||   |  ||| |    |||| ||  |       | |||||| |    |||| || ||||  || || ||||| ||||||||||||||| |||||||||| |||||  | || || || ||||| ||||| || | |||||| || ||||
------gtatatatgctctaaaccaccatctatatagat-----ctgtctgaaagcat-ctggttatcatgtacggagtatactcatggtccaaggtc-cattggacagcatggt---gagccagccattctgattttaatcccttttcttctctgataatagGCTCTGCAGTACGAAGAGGCCAAGTTCAAGGCATTTGATTTGGCCTCAAAGCCTGAAGGTGTGGGCACGCCAACAAAGGACTTTAGGGCACTGTTCTCCC

upper sequence: Vv08s0007g00530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G15960.1 (Glycine max), 3'ss of exon 6
gtaatagtttacaagggcttgtgcatgttcattatgcattttttctgtttcaattcttgcttgttcttctctgcttaccattatatattcatacataacgtt-agatttcttggttgtgccccatcttgactgagttgcaaattacatgttctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAATCCTGAGAGAGTTGGTACACCAACGAAGGATTTCAAGGCACTTTTTTCCC
                                        | | ||| |   | |  ||       || |||    |  |   |  |||  | |  |||  | |||||||       |||||| |||| |   | |||          |||     | ||||||||  | |||||||| || |||||||||||||||||  |||| ||||| |||||| |||  ||| || |||| ||||||||||||||  | |||||||
----------------------------------------tctcctggtagtacttatggaaaagtttatctaagca--agccttaatttctgctcaactctgagatttcg-----atgccccctcttcatataattg----------gttt----aacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAACCTGAGGGAGCAGGTTCAGCAACAAAGGATTTCAAGGCTTTATTTTCCC
















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|349810529|gb|FQ402772.1|FQ402772
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAT                         GCACTCCAGTTTGAGGAAAGCCAA-TTCA
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAA-GCCAAATTCA
EST: gi|28959045|gb|CB339524.1|CB339524
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|351016336|gb|FQ446196.1|FQ446196
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|349821239|gb|FQ404371.1|FQ404371
EST:     CAGAAACAAGAACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACACCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|28959215|gb|CB339608.1|CB339608
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|22008555|gb|BQ793589.1|BQ793589
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|110700744|gb|EE077667.1|EE077667
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAA-TTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|110385557|gb|EC950093.1|EC950093
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|110731770|gb|EE106470.1|EE106470
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|45771772|gb|CN007624.1|CN007624
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|351023663|gb|FQ448214.1|FQ448214
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|352790186|gb|FQ481385.1|FQ481385
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|110419625|gb|EC985868.1|EC985868
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|351051751|gb|FQ449565.1|FQ449565
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAC                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|351054211|gb|FQ450293.1|FQ450293
EST:     CAGAAACAAGGACCATTACCAGGAATGATGTTGCAGAGGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
EST: gi|351028714|gb|FQ433144.1|FQ433144
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCATTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGG
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGG
EST: gi|351055225|gb|FQ440564.1|FQ440564
EST:     CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAG                         GCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT
genomic: CAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagttt ... ctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttggttgtgccccatcttgactgagttgcaaattacatgttctctaaccagGCACTCCAGTTTGAGGAAGCCAAATTCAAGGCATTTGATCTGGCCTCAAATCCTGAGAGAGTTGGTACACCAACGAAGGATTTCAAGGCACTTTTTTCCC
                  tcttgac  putative branch site (score: 3)
                                         tgttctct  putative PPT
                                 aaattacat  TA-rich tract