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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttactaatattgtgattttgagggtttcctctatattttttgttattgcctcttcagattttgatcttcccaaattattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATTGAGGAAAATCTTTGATGGTGTTTTGGTGAAGGCCAATGAAGGAATTCTG

Basic information

species Vitis vinifera
transcript Vv09s0070g00130.t01
intron # 3
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|110424125|gb|EC990481.1|EC990481
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|110707697|gb|EE084394.1|EE084394
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|110729308|gb|EE105444.1|EE105444
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|110723130|gb|EE100088.1|EE100088
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|71858171|gb|DT007226.1|DT007226
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|32245909|gb|CD711728.1|CD711728
EST:     GGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: GGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|110702626|gb|EE078762.1|EE078762
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|30134184|gb|CB919522.1|CB919522
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|161710238|gb|FC058954.1|FC058954
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
EST: gi|110731600|gb|EE106153.1|EE106153
EST:     TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGG                         CAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT
genomic: TCATTGGAAACATTAGACTCCAAACTGCTTTTTGTCATTCGCATACAGGGgttggttact ... ttattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatattttttgttattgcctcttcagattttgatcttcccaaattattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATTGAGGAAAATCTTTGATGGTGTTTTGGTGAAGGCCAATGAAGGAATTCTG
                             ttttgat  putative branch site (score: 4)
                                             ttattttc  putative PPT
     attttttgttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggttactaatattgtgattttgagggtttcctctatattttttgttattgcctcttcagattttgatcttcccaaattattttcagCAAAAATGATATGCATCCAAAGACTAGGAAGATCTTATACTTTTTGAGATTGAGGAAAATCTTTGATGGTGTTTTGGTGAAGGCCAATGAAGGAATTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA