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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaattgctttattctttaagatcttttgtccttttttttttttcttattattgtcagtgttcaattgctctctcacatggcctctgcctttcatttgctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCATCGAGCCCTTCTTCAAGCGTCCAGGAAACAGAAGATTTGGAAGGAATTA

Basic information

species Vitis vinifera
transcript Vv02s0025g03420.t01
intron # 4
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|349821698|gb|FQ413014.1|FQ413014
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GACGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351043111|gb|FQ451284.1|FQ451284
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|349812996|gb|FQ411236.1|FQ411236
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GACGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351051854|gb|FQ455268.1|FQ455268
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|349827307|gb|FQ421580.1|FQ421580
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351025649|gb|FQ426663.1|FQ426663
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351057015|gb|FQ448532.1|FQ448532
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351033268|gb|FQ462040.1|FQ462040
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351055512|gb|FQ442308.1|FQ442308
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351027423|gb|FQ444672.1|FQ444672
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351034126|gb|FQ463060.1|FQ463060
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351013982|gb|FQ434134.1|FQ434134
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351032387|gb|FQ461640.1|FQ461640
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351039821|gb|FQ464859.1|FQ464859
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351047995|gb|FQ441167.1|FQ441167
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351023952|gb|FQ423375.1|FQ423375
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|349807359|gb|FQ401351.1|FQ401351
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GACGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|352798974|gb|FQ480823.1|FQ480823
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|349813871|gb|FQ414105.1|FQ414105
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GACGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|351037038|gb|FQ465030.1|FQ465030
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
EST: gi|349812998|gb|FQ411238.1|FQ411238
EST:     ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCG                         GACGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA
genomic: ATGCCACCAGTGTGCGTGAGGAAAATGAGTATCTGGAGTTCTCTGGACCGgtaaaaattg ... ctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcagtgttcaattgctctctcacatggcctctgcctttcatttgctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCATCGAGCCCTTCTTCAAGCGTCCAGGAAACAGAAGATTTGGAAGGAATTA
                 ctctcac  putative branch site (score: 3)
                            cctctgcctttcattt  putative PPT
                                    tttcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaattgctttattctttaagatcttttgtccttttttttttttcttattattgtcagtgttcaattgctctctcacatggcctctgcctttcatttgctctttccagGATGTACTTTTAGAGGATCAATCGCAAACATTTTCATTAGGTGTTCCTCCATCGAGCCCTTCTTCAAGCGTCCAGGAAACAGAAGATTTGGAAGGAATTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA