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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcaagcctatagtgaccctttttttctttacagtgcaagcatgtttgcaattgccactttgataaagtgaagtactaactttcttagatttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCTAGAATTCTCAAGAACCATTTCAAAGGAAAGCCATATTATGTGGATCTTC

Basic information

species Vitis vinifera
transcript Vv19s0015g01010.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|161718315|gb|FC067264.1|FC067264
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|161707433|gb|FC057709.1|FC057709
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTG
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTG
EST: gi|110702878|gb|EE079232.1|EE079232
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAAGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|110396453|gb|EC962139.1|EC962139
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|22013972|gb|BQ799006.1|BQ799006
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|110729204|gb|EE105291.1|EE105291
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|71877000|gb|DT026055.1|DT026055
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|30256278|gb|CB972121.1|CB972121
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|46917987|gb|CN547316.1|CN547316
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|71860763|gb|DT009818.1|DT009818
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|110698392|gb|EE075834.1|EE075834
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|77579770|gb|DV218763.1|DV218763
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|110375001|gb|EC939952.1|EC939952
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|161709928|gb|FC060567.1|FC060567
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|71855535|gb|DT004590.1|DT004590
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|30128757|gb|CB914096.1|CB914096
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|37189469|gb|CF608818.1|CF608818
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|110687343|gb|EE064671.1|EE064671
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
EST: gi|46917875|gb|CN547204.1|CN547204
EST:     ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAG                         GTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT
genomic: ATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcct ... tttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcaattgccactttgataaagtgaagtactaactttcttagatttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCTAGAATTCTCAAGAACCATTTCAAAGGAAAGCCATATTATGTGGATCTTC
                             tactaac  putative branch site (score: 0)
                                             tttgtctt  putative PPT
              tttgataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcaagcctatagtgaccctttttttctttacagtgcaagcatgtttgcaattgccactttgataaagtgaagtactaactttcttagatttgtcttagGTTGGTATGATTGCTGCGAATGATGGGGTGATTCTTCGCAATCAAATCCCTAGAATTCTCAAGAACCATTTCAAAGGAAAGCCATATTATGTGGATCTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA