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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatcctattctcttatctgtattgacaaactaacatagaatactttttctgaaatccaattttgttacttgatcatgcataattaaagtgcattttttctttaacaaaataaccttctcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTTTCCACCTCAACTAATAACACCCCTTCTGTTGGCTCTTCTTTTGCATCTC

Basic information

species Vitis vinifera
transcript Vv02s0012g01330.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g01330.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 3'ss of exon 3
----------------------------------------------------gtagatcctattctcttatctgtattgacaaactaacata---gaatacttt----ttctgaaatccaattttgttacttgatcatgcataattaaagtgcattttttctttaacaaaataaccttctcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTTTCCACCT-CAACTAATAACACCCCTTCTGTTGGCTCTTCTTTTGCATCTC
                                                     |||  |  |||    |  |  |    ||||   || |||    |||||        | | || | |||  |    |     |  | |  || |||| || |  || | |   |  || |       |  | | ||||||| ||||| ||||||||| |||||||||||||| | | ||    | | | |||||    ||| | ||||   |  |     ||   |||  | | || |
gtatgctctctgcatatccgattgagttagagcttcatcttcttaacaaaccatagccctgatttgaattgcgttgccaacaatgaaatatacccaaatacccagtgaatttcaattacaaagtgtccatccttttctcctcaagtaaattgaaaattctgtactaacaacttttgccatttgttccagCCAAATGAAAGTCTCTATGAGCAGAAGCCTGAAGAGCTAGCTCCTGC-GCTGCCACCAGTGACTGAGAACAGTACAGCAAAGAGCAAATCTCATACTTCAC
















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|110405778|gb|EC971328.1|EC971328
EST:     GTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: GTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110706113|gb|EE083724.1|EE083724
EST:     AGAGAACCGGANAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|71867456|gb|DT016511.1|DT016511
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGA-GAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|156736120|gb|EV240241.1|EV240241
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110380236|gb|EC945484.1|EC945484
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|71860448|gb|DT009503.1|DT009503
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110707454|gb|EE083867.1|EE083867
EST:     GAGAACCGGAAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGACCAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: GAGAACCGGAAAAA-GTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110400199|gb|EC966749.1|EC966749
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110732011|gb|EE106922.1|EE106922
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACA-CAAAG                         CCAAGTGGAAATCTCTATGAACAGAAACCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|22011758|gb|BQ796792.1|BQ796792
EST:     AGAGACCCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|30126699|gb|CB912038.1|CB912038
EST:     AGAAAGCTAACAACAAAG                         CCAAGTGANAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110395731|gb|EC961401.1|EC961401
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110730947|gb|EE108607.1|EE108607
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110702857|gb|EE079196.1|EE079196
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|110422737|gb|EC989065.1|EC989065
EST:     GGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
genomic: GGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT
EST: gi|71867980|gb|DT017035.1|DT017035
EST:     AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAG                         CCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAAC-ATCTGTACCTGTT
genomic: AGAGAACCGGAAAAAGTTCTGGGCTTGGTGCTAGAAAGCTAACAACAAAGgtagatccta ... tcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgcataattaaagtgcattttttctttaacaaaataaccttctcggatgcagCCAAGTGAAAATCTCTATGAACAGAAGCCTGAAGAACCATCTGTACCTGTTTCCACCTCAACTAATAACACCCCTTCTGTTGGCTCTTCTTTTGCATCTC
                                  aaataac  putative branch site (score: 2)
                                        ccttctc  CT-rich tract
      ataattaaagtgcatt  TA-rich tract