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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgaaaagaatgtgagatgaattggaaattttttattgtttccttaacatatactgattgactttcttataagcaactgccattttgatgctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCCATTGCTTTTGATTGGTTAG

Basic information

species Vitis vinifera
transcript Vv07s0151g00860.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0151g00860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G23870.1 (Glycine max), 3'ss of exon 5
------atgaaaagaatgtgagatgaattggaaattttttattgtttccttaacatatactgattgactttcttataagcaactgccattttgatgctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCCATTGCTTTTGATTGGTTAG
       || |||   |   |  || || |  | || |||  |||     | | ||||| |||   ||     | | |    ||| ||  |||||| || || ||||| || |||||||||||||||||||| |||||||||||| | || || | ||| || ||||| ||| |||
acatagttggaaatgttaataagtgtatcgtgagttattt--tgtccatattagatatattgagaaaccacaatttta----ctggcaaattgatgatgctgccagGCATATTCTTACCGCAAAGTTCTTCCAGTACTCTCCAAGGACTATCACGTCATAGCCTTTGACTGGCTAG
















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|351055280|gb|FQ441878.1|FQ441878
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|27580560|gb|CB003255.1|CB003255
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351054424|gb|FQ450507.1|FQ450507
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|352790943|gb|FQ479936.1|FQ479936
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351054345|gb|FQ450428.1|FQ450428
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351053960|gb|FQ441726.1|FQ441726
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351038630|gb|FQ464496.1|FQ464496
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351041932|gb|FQ456142.1|FQ456142
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351044390|gb|FQ452942.1|FQ452942
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCANAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351056109|gb|FQ453571.1|FQ453571
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351057496|gb|FQ440090.1|FQ440090
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351044595|gb|FQ443126.1|FQ443126
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|27579662|gb|CB002357.1|CB002357
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|352790264|gb|FQ481463.1|FQ481463
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351054568|gb|FQ462675.1|FQ462675
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|352798862|gb|FQ478497.1|FQ478497
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|32250149|gb|CD715968.1|CD715968
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351032736|gb|FQ462450.1|FQ462450
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351039837|gb|FQ464875.1|FQ464875
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351037996|gb|FQ460738.1|FQ460738
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351044516|gb|FQ443047.1|FQ443047
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351054394|gb|FQ450477.1|FQ450477
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|352789760|gb|FQ478575.1|FQ478575
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCCTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351054311|gb|FQ450394.1|FQ450394
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351037499|gb|FQ460698.1|FQ460698
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351039712|gb|FQ464750.1|FQ464750
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351038914|gb|FQ457589.1|FQ457589
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351039029|gb|FQ457704.1|FQ457704
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351057344|gb|FQ454026.1|FQ454026
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351055936|gb|FQ453397.1|FQ453397
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
EST: gi|351053868|gb|FQ441634.1|FQ441634
EST:     GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAA                         GCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC
genomic: GAAGTCCAGACAACCATTCAGTTATTCTTATTCATGGTTTTCCTTCTCAAgtgagtccta ... ctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatatactgattgactttcttataagcaactgccattttgatgctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCCATTGCTTTTGATTGGTTAG
                 tttcttataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgaaaagaatgtgagatgaattggaaattttttattgtttccttaacatatactgattgactttcttataagcaactgccattttgatgctgttgacagGCTTACTCTTACCGCAAAGTTCTTCCTGTACTCTCCAAGAAGTACCATGCCATTGCTTTTGATTGGTTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- -aaaagaa
- - - - - - - - - - attggaaa
- - - - - - - - - - - - - - - - - - tgtttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caactgc