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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgctatacccactgaattcagtttagggttagggtttggtgtacagtatctatttatatcttcatttatttgtgttttaacgattcagttgtttcgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG

Basic information

species Vitis vinifera
transcript Vv14s0060g02240.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G37170.2 (Glycine max), 3'ss of exon 1
-----------------------------------------------------------------------------gtacgcta-tacccactgaattcag---tttagggttagggtttggtgtacagta-tcta--tttatatcttcatttatttgtgttttaacgattcagttgtttcgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
                                                                              | | | | |   ||  |||| |     | ||||||||  |||     || | ||  |||   || ||| || ||||     | ||    | ||||     || |   || |||||||||||||| || ||||||||||| ||||| |||||||||
gtaagtacctcttcttctccaaacctcattctcttcaaacgctaacgtttaatttttaagcggagtgggattccactttccccgagtgatcatagaatccgaagctctagggttaccgttactgttaaattaacctaacattgtatattaattttacctttttaaccccattctccgtttactccttgcagCTTCCTCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCTATG

upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G39780.1 (Glycine max), 3'ss of exon 1
---------------------------------------------------------------------gtacgctataccc--actgaattcagttt----agggttagggtttggtg-----tacagtatctatt---tatatcttcattta---tttgtgttttaacgattcagttgtttcgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
                                                                      | ||   | |||  |||||    ||| |    ||   ||||||   ||      || | |  |  ||   ||||| || ||||    ||| |      |   | |  ||  | | | || |||||||||||||| || ||||||||||| ||||| |||||||||
gtaattacctcttcttctccaaacctcattctcttcaaacgctaacgttcaatttttaagcgcagtgggattcgactttccccgactgatcatagtatctgaagctctagggtcccgtaactgttaaattgacctttcagtatatattaatttgacctttttaaccccattctccgtttactccttcttgcagCTTCCTCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCTATG
















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|37189618|gb|CF608967.1|CF608967
EST:     CTTCTTTCCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATG                         CTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
genomic: CTTCTTTGCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATGgtacgctata ... cgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
EST: gi|37189144|gb|CF608493.1|CF608493
EST:     CTTCTTTGCAAGTCAAGCGACACCGCTGAATTTTCGTTTTTCAGAAGATG                         CTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
genomic: CTTCTTTGCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATGgtacgctata ... cgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
EST: gi|110368812|gb|EC932903.1|EC932903
EST:     GCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATG                         CTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
genomic: GCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATGgtacgctata ... cgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
EST: gi|71886236|gb|DT035291.1|DT035291
EST:     CTTCTTTGCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATG                         CTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
genomic: CTTCTTTGCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATGgtacgctata ... cgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
EST: gi|37184974|gb|CF604327.1|CF604327
EST:     CGTTTTTCAGAAGATG                         CTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
genomic: CGTTTTTCAGAAGATGgtacgctata ... cgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
EST: gi|37189131|gb|CF608480.1|CF608480
EST:     CTTCTTTGCAAGTCAAGCGACACCGCTGAATTTTCGTTTTTCAGAAGATG                         CTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
genomic: CTTCTTTGCAAGTCAAGCAACACCGCTGAATTTTCGTTTTTCAGAAGATGgtacgctata ... cgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatttatatcttcatttatttgtgttttaacgattcagttgtttcgtttttcagCTTCCTCTTTCTCTGCTCAAGACTGCTCAAGGTCACCCTATG
                         ttttaac  putative branch site (score: 2)
                                       ttgtttcgtttttc  putative PPT
     tatatcttcatttatt  TA-rich tract