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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatatatatatatatatatatatatatatttgaattagttcatttttatatttttattatatgttgatctgtgagtttatggttacactctattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAATTGAGATATATGAATTTGAAAG

Basic information

species Vitis vinifera
transcript Vv08s0007g03250.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g03250.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G22160.1 (Glycine max), 3'ss of exon 2
tatatatatatatatatatatatatatatttgaattagttcatttttatatttttattatatgttgatctgtgagttt-atggttacactc----tattatct-agGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAATTGAGATATATGAATTTGAAAG
     |   ||     |        |      |   |   | | | |||||||||  | ||      ||  |   ||| ||| | ||| |     ||| || | |||  | |   | ||||| ||  ||||| | |||||||| |||||||| || |||||||||||||||||||| | 
-----aagaatccccctcccccc-caccccccacccaccgcctctgtatattttttgtttagtcctctccttatttttcatgttaacattagtagtatgatttcagGCGTTACCATAAAAGAAACAGCAAAATTAGGCCCTCGCCCAGAGAAGCCTATTGAGATATATGAATTTGAGAC

upper sequence: Vv08s0007g03250.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA0084S00210.1 (Glycine max), 3'ss of exon 2
tatatatatatatatatatatatatatatttgaattagttcatttttatatttttattatatgttgatctgtgagtttatggttacactc----tattatct-agGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAATTGAGATATATGAATTTGAAAG
     |   | || | | |    |    ||  |       |  |     || | | ||   | |||  ||     || ||| | ||| |     ||| || | |||  | |   | ||||| ||  ||||| | |||||||| |||||||| || ||||| |||||||||||||| ||
-----agcaacatctttgtgctcaaccgttcaagaatcccccctcccccatctctttttagtcttgtccttatttttcatgttaacattagtagtatgatttcagGCGTTACCATAAAAGAAACAGCAAAATTAGGCCCTCGCCCAGAGAAGCCTATTGAAATATATGAATTTGAGAG
















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|349822639|gb|FQ412903.1|FQ412903
EST:     TGTATCCTAAAGCGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTG                         GTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
EST: gi|30253209|gb|CB970760.1|CB970760
EST:     TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTG                         GTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
EST: gi|351019188|gb|FQ429348.1|FQ429348
EST:     TGTATCCGAAAGTGAGATTCCACCTGACGGGTATATTCTAGAAATTGCTG                         GTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
EST: gi|349829498|gb|FQ420030.1|FQ420030
EST:     TGTATCCGAAAGTGAGATTCCACCTGACGGGTATATTCTAGAAATTGCTG                         GTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
EST: gi|110413628|gb|EC979423.1|EC979423
EST:     TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTG                         GTTTCAAAGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
EST: gi|28959489|gb|CB339745.1|CB339745
EST:     TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCAG                         GTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
EST: gi|71855235|gb|DT004290.1|DT004290
EST:     TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTG                         GTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAGCCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
EST: gi|349811972|gb|FQ410769.1|FQ410769
EST:     TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTG                         GTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA
genomic: TGTATCCGAAAGTGAGATTCCACCTGACGAGTATATTCTAGAAATTGCTGgtactgatct ... tattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatttttattatatgttgatctgtgagtttatggttacactctattatctagGTTTCAAGGTGAAAGAGACTTCAAAAGTGGGCCCTCGACCAGAGAAACCAATTGAGATATATGAATTTGAAAG
                tgttgat  putative branch site (score: 4)
                                          ctctatt  putative PPT
     tttttattatatgttg  TA-rich tract