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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttaaaacacatgaacatgtacatgtttcggtttcggtttcggtttcggtttcgttcacgtttcggtgttcacttccaagttgctaattgaaacgtttcgggtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCGGGCCTATGACGAGGCGGCGAGGCTCATGTGTGGTCCGAGGGCGAGAACC

Basic information

species Vitis vinifera
transcript Vv04s0008g06000.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g06000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ28960 (Selaginella moellendorffii), 3'ss of exon 1
gtaagttaaaacacatga-acatgtacatgtttcggtttcggtttcggtttcggtttcgttcacgtttcggtgttcacttccaagttgctaattgaaacgtttcgggtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCGGGCCTATGACGAGGCGGCGAGGCTCATGTGTGGTCCGAGGGCGAGAACC
        |    ||||  | | |  ||     | |  ||   || | |||   |||| ||   || | | |||||    | | |      |||||   | |||   |   ||||||||||| ||| | ||||||||||||||||| || || |||||||| || || ||||| |||||||| || ||  | ||| | || ||  |||| ||||| 
------ggatctccatggtagacgagcagcgggcaggatcatcttagatttttctttcctt---gtcttgctgttcttggcgagg------attgatgggattcct-tgaatgcagGAAGACGAGAGTGTGGCTGGGCACATTCGAGACCGCCGAGGACGCCGCCCGTGCCTACGACGAGGCCGCCAGATTGATGGGAGGCCCCCGGGCAAGAACG
















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|110359315|gb|EC920607.1|EC920607
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110408037|gb|EC973658.1|EC973658
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110407774|gb|EC973389.1|EC973389
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|71858677|gb|DT007732.1|DT007732
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110724613|gb|EE100592.1|EE100592
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|30132099|gb|CB917438.1|CB917438
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110697784|gb|EE075175.1|EE075175
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|71854937|gb|DT003992.1|DT003992
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110723979|gb|EE099404.1|EE099404
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110357212|gb|EC920590.1|EC920590
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|71857304|gb|DT006359.1|DT006359
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|37183570|gb|CF602924.1|CF602924
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110729314|gb|EE105456.1|EE105456
EST:     GACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTC
genomic: GACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTT-CTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTC
EST: gi|110356580|gb|EC919511.1|EC919511
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110702817|gb|EE079121.1|EE079121
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110359192|gb|EC920286.1|EC920286
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110369079|gb|EC933224.1|EC933224
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110722050|gb|EE097951.1|EE097951
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|110722609|gb|EE098987.1|EE098987
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|294966948|gb|GW839823.1|GW839823
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
EST: gi|22009718|gb|BQ794752.1|BQ794752
EST:     CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCT                         GAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG
genomic: CGACAGAGGCATTGGGGCAGTTGGGTCTCTGAAATTCGCCACCCACTTCTgtaagttaaa ... gtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacgtttcggtgttcacttccaagttgctaattgaaacgtttcgggtttgtgcagGAAGACTAGAATTTGGCTGGGCACATTCGAAACGGCGGAGGACGCTGCTCGGGCCTATGACGAGGCGGCGAGGCTCATGTGTGGTCCGAGGGCGAGAACC
                         tgctaat  putative branch site (score: 2)
                            taattgaaa  TA-rich tract