Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatatataaatgcttcttccagaaaccactaagtgtctgttaaactgttccattacttatgatgtctttctttttgtatgtggataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTGACAAAGGGACACTACAGGAAGTGTATGGAGCAGAGGTTCAAGGAACTAG

Basic information

species Vitis vinifera
transcript Vv12s0059g01380.t01
intron # 1
splice site 3'
intron type U2

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|351026123|gb|FQ428135.1|FQ428135
EST:     CCACCATGGAGATGATCAAAGATTCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161716106|gb|FC068055.1|FC068055
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|30252772|gb|CB970323.1|CB970323
EST:     CCACCATGGAGACGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|351054949|gb|FQ440288.1|FQ440288
EST:     CCACCATGGAGATGATCAAGGATGCCTGTGAGAACTGGGGTCTCTTCGAG                         TTGGCGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|351022691|gb|FQ428600.1|FQ428600
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161714036|gb|FC064111.1|FC064111
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|349832706|gb|FQ422064.1|FQ422064
EST:     CCACCATGGAGATGATCAAAGATTCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161714262|gb|FC064159.1|FC064159
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161718648|gb|FC068224.1|FC068224
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|30256251|gb|CB972094.1|CB972094
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|110700838|gb|EE077845.1|EE077845
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161707767|gb|FC056432.1|FC056432
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|110688626|gb|EE067394.1|EE067394
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|351055645|gb|FQ452110.1|FQ452110
EST:     CCACCATGGAGATGATCAAGGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGCGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161720595|gb|FC069917.1|FC069917
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161713229|gb|FC063069.1|FC063069
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTTGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
EST: gi|161710874|gb|FC058572.1|FC058572
EST:     CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAG                         TTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG
genomic: CCACCATGGAGATGATCAAAGATGCCTGTGAGAACTGGGGTTTCTTCGAGgtaaggatat ... ataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaaactgttccattacttatgatgtctttctttttgtatgtggataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTGACAAAGGGACACTACAGGAAGTGTATGGAGCAGAGGTTCAAGGAACTAG
                                           ggataac  putative branch site (score: 3)
             attacttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggatatataaatgcttcttccagaaaccactaagtgtctgttaaactgttccattacttatgatgtctttctttttgtatgtggataaccatagTTGGTGAATCATGGAATCTCTCATGAGCAAATGGACGCTGTGGAAAAATTGACAAAGGGACACTACAGGAAGTGTATGGAGCAGAGGTTCAAGGAACTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA