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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattatatagactcgctctttgagttagagcttacatgtttaagcaccagattgcgtgaaaatggagggtaaagttaaggcttttgatggtatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCAAAAAACACAACCAGCATGGTATATTCAGACTCATCAACTCCAAAATCGT

Basic information

species Vitis vinifera
transcript Vv14s0030g00710.t01
intron # 13
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|26263890|gb|CA814953.1|CA814953
EST:     ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTG                         GTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
genomic: ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTGgtaagttctc ... tatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
EST: gi|33403305|gb|CF208932.1|CF208932
EST:     ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTG                         GTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
genomic: ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTGgtaagttctc ... tatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
EST: gi|161720457|gb|FC070569.1|FC070569
EST:     ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTG                         GTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
genomic: ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTGgtaagttctc ... tatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
EST: gi|161720623|gb|FC070233.1|FC070233
EST:     ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTG                         GTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
genomic: ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTGgtaagttctc ... tatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
EST: gi|26265801|gb|CA816864.1|CA816864
EST:     ATGCAATCATGATTACCAGCCCCATAACAGTTGTTCTTTTCAGCACAGTG                         GTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
genomic: ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTGgtaagttctc ... tatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
EST: gi|33403383|gb|CF209010.1|CF209010
EST:     ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTG                         GTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA
genomic: ATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTGgtaagttctc ... tatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accagattgcgtgaaaatggagggtaaagttaaggcttttgatggtatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCAAAAAACACAACCAGCATGGTATATTCAGACTCATCAACTCCAAAATCGT
                                    ttttgat  putative branch site (score: 4)
                                             tatttttc  putative PPT
                        taaagttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattatatagactcgctctttgagttagagcttacatgtttaagcaccagattgcgtgaaaatggagggtaaagttaaggcttttgatggtatttttcagGTATTTGGTTTAATGACTCAACCTCTTATAAGATTCTTGCTTCCTCATTCAAAAAACACAACCAGCATGGTATATTCAGACTCATCAACTCCAAAATCGT

- - - - - -ctcgctc
- - - - - - - - - - - - - - - - -acatgtt
- - - - - - - - - - - - - - - - - - - - - agcacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agggtaaa