Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttcccttttcaaactggctaattgacatgtcatttcgctgcaattacggctgcaatagtaatctctaatccagaaataatgatgcggtttccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTTGTTAATGACAG

Basic information

species Vitis vinifera
transcript Vv04s0008g03770.t01
intron # 2
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|161712214|gb|FC061588.1|FC061588
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|161714368|gb|FC063209.1|FC063209
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|349822896|gb|FQ398283.1|FQ398283
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGCTGGTGCTTATCGAACAGAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|71860471|gb|DT009526.1|DT009526
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|349825792|gb|FQ423087.1|FQ423087
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|161710282|gb|FC060659.1|FC060659
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|161718975|gb|FC067020.1|FC067020
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACATAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|161706860|gb|FC055539.1|FC055539
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|351029008|gb|FQ435009.1|FQ435009
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|110698493|gb|EE076055.1|EE076055
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|110368860|gb|EC932986.1|EC932986
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|110711178|gb|EE087421.1|EE087421
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|71858293|gb|DT007348.1|DT007348
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|349830105|gb|FQ420365.1|FQ420365
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|29783169|gb|CB349167.2|CB349167
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAACCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
EST: gi|30306042|gb|CB982836.1|CB982836
EST:     ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAG                         GAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT
genomic: ATCCTAGCCCAGTGAAACTGAACTTGGGCGTTGGTGCTTATCGAACAGAGgtaggtttcc ... ccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acggctgcaatagtaatctctaatccagaaataatgatgcggtttccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTTGTTAATGACAG
                 ctctaat  putative branch site (score: 3)
                                          tttccttattc  putative PPT
                            aaataatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtttcccttttcaaactggctaattgacatgtcatttcgctgcaattacggctgcaatagtaatctctaatccagaaataatgatgcggtttccttattcagGAAGGAAAGCCTCTTGTTCTGAATGTAGTGAGACGGGCAGAGCAGCTGCTTGTTAATGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT