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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctttctccctctctctcttgctcagtgtctatctattatgctctattttttatttctatgctctattttttaaaagaatttcctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAAGGAACTGGGAAGACAAAGGAAGAAATAAAAAAAGATGTCGAACGCCCAA

Basic information

species Vitis vinifera
transcript Vv03s0091g00700.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0091g00700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G26950.1 (Glycine max), 3'ss of exon 8
gtctttctccctctctctcttgctcagtgtctatctattatgctctattttttatttctatgctctattttttaaaagaatttcctc------cat-cagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAAGGAACTGGGAAGACAAAGGAAGAAATAAAAAAAGATGTCGAACGCCCAA
     ||||   || | | ||    | | |   |||  |||| ||| |   ||||||      | ||||  |   ||| || |   |      ||| ||||| ||||| ||||| |||||  | ||||||||||||||||| || || ||||| || |||||  |||||||||||||    ||||||||| |  | || |
-gtactctctacctgtttgttctctactctagttct-ctatgttctctcaattatttagccattatattcatatcaagtatgttggcaaaacacatacagGCAAAAGAGCTAGAGGCAAATACTGAGTATTACATTGAGCTGTTGGCAAAAGGGACAGGGAAATCAAAGGAAGAAATTGCTAAAGATGTCCAGAGGCCTA

upper sequence: Vv03s0091g00700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G40390.1 (Glycine max), 3'ss of exon 7
gt-ctttctccctctctctcttgctcagtgtctatctattatgctctattttttatttctatgctctattttttaaaagaatttcctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAAGGAACTGGGAAGACAAAGGAAGAAATAAAAAAAGATGTCGAACGCCCAA
|| || ||| ||| | |    |  ||  | | |       ||  | ||    |||| | |||      | | ||   | ||    | |   ||||| ||||| ||||| |||||  | ||||||||||||||||| || || ||||| || |||||  |||||||||||||    ||||||||| |  | || |
gtactgtctacctgtttgcactcttctttatattctctcaattatttagccattatatttatatcaagtatgttggcaaaa----cacatacagGCAAAAGAGCTAGAGGCAAATACTGAGTATTACATTGAGCTGTTGGCAAAAGGGACAGGGAAATCAAAGGAAGAAATTGCTAAAGATGTCCAGAGGCCTA
















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|26266206|gb|CA817269.1|CA817269
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCACAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|110396404|gb|EC962089.1|EC962089
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|27579693|gb|CB002388.1|CB002388
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|26267312|gb|CA818375.1|CA818375
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|30321875|gb|CD005137.1|CD005137
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|28968092|gb|CB347125.1|CB347125
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTACTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|110391380|gb|EC956351.1|EC956351
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|26264295|gb|CA815358.1|CA815358
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCACAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|30321951|gb|CD005213.1|CD005213
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|110361742|gb|EC925238.1|EC925238
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCACAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|22007314|gb|BQ792348.1|BQ792348
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTCCATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|110685602|gb|EE062466.1|EE062466
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCCAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|26264973|gb|CA816036.1|CA816036
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|26258048|gb|CA809111.1|CA809111
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|32245203|gb|CD711022.1|CD711022
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|45770688|gb|CN006540.1|CN006540
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|352764297|gb|FQ471277.1|FQ471277
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|110388571|gb|EC953335.1|EC953335
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
EST: gi|110395310|gb|EC960968.1|EC960968
EST:     TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAG                         GCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA
genomic: TACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATATGTGGATTAAGgtctttctcc ... cctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgctctattttttatttctatgctctattttttaaaagaatttcctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAAGGAACTGGGAAGACAAAGGAAGAAATAAAAAAAGATGTCGAACGCCCAA
                                          tttcctccatc  CT-rich tract
       tattttttatttctat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctttctccctctctctcttgctcagtgtctatctattatgctctattttttatttctatgctctattttttaaaagaatttcctccatcagGCCAAAGAACTAGATGCAAACTCGGAGTATTACATTGAGCTATTAGCTAAAGGAACTGGGAAGACAAAGGAAGAAATAAAAAAAGATGTCGAACGCCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG