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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccttggtatcagtggcttattcatcttggtgtcttctatttgaactcccatctctttgtagtttttctgcaggtccttttattttattttttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGGTATCAGGGCCTCGTCTTCCTACTCCCATGAAATTGATGAAGTTGATAAT

Basic information

species Vitis vinifera
transcript Vv05s0051g00940.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|22008454|gb|BQ793488.1|BQ793488
EST:     ATAAGCAGAGAAGGAGAATCTGTGATCTCATAAGACATGAATTCCAGAAG                         GGATCACCGAGGCAATAGAGCCGCCGCTTTTGATGGCATTGAGGAGGGTGG
genomic: ATAAGCAGAGAAGGAGAATCCGTGATCTCATAAGACATGAATTCCAGAAGgttcgttaca ... ttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGG
EST: gi|37183816|gb|CF603170.1|CF603170
EST:     ATAAGCAGAGAAGGAGAATCTGTGATCTCATAAGACATGAATTCCAGAAG                         GGATCACCGAGGCAATAGAGCCGCCACTTTTGATGGCATTGAGGAGGGTGG
genomic: ATAAGCAGAGAAGGAGAATCCGTGATCTCATAAGACATGAATTCCAGAAGgttcgttaca ... ttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGG
EST: gi|22009494|gb|BQ794528.1|BQ794528
EST:     ATAAGCAGAGAAGGAGAATCTGTGATCTCATAAGACATGAATTCCAGAAG                         GGATCACCGAGGCAATAGAGCCGCCGCTTTTGATGGCATTGAGGAGGGTGG
genomic: ATAAGCAGAGAAGGAGAATCCGTGATCTCATAAGACATGAATTCCAGAAGgttcgttaca ... ttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGG
EST: gi|46918094|gb|CN547423.1|CN547423
EST:     ATAAGCAGAGAAGGAGAATCTGTGATCTCATAAGACATGAATTCCAGAAG                         GGATCACCGAGGCAATAGAGCCGCCGCTTTTGATGGCATTGAGGAGGGTGG
genomic: ATAAGCAGAGAAGGAGAATCCGTGATCTCATAAGACATGAATTCCAGAAGgttcgttaca ... ttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGG
EST: gi|110386397|gb|EC950990.1|EC950990
EST:     ATAAGCAGAGAAGGAGAATCCGTGATCTCATAAGACATGAATTCCAGAAG                         GGATCACCGAGGCAATAGAGCCGCCACTTTTGATGGCATTGAGGAGGGTGG
genomic: ATAAGCAGAGAAGGAGAATCCGTGATCTCATAAGACATGAATTCCAGAAGgttcgttaca ... ttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccatctctttgtagtttttctgcaggtccttttattttattttttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGGTATCAGGGCCTCGTCTTCCTACTCCCATGAAATTGATGAAGTTGATAAT
                            tccttttattttattt  CT-rich tract
                               ttttattttatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccttggtatcagtggcttattcatcttggtgtcttctatttgaactcccatctctttgtagtttttctgcaggtccttttattttattttttccatacagGGATCACCGAGGCAATAGGGCCGCCACTTTTGATGGCATTGAGGAGGGTGGTATCAGGGCCTCGTCTTCCTACTCCCATGAAATTGATGAAGTTGATAAT

- - - - - - tggctta
- - - - - - - - - - - - - tggtgtc
- - - - - - - - - - - - - - - - - - - - - - - -ccatctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgcag