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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgtcttcaactctttgattatttgatttgatttgattctattttattttacaaaatttgtttttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATCAGTTGGTCAAATGGGAGGCTAAGGTTGAAGAAGATCTCGATAAGTTGCT

Basic information

species Vitis vinifera
transcript Vv01s0010g03830.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|110415766|gb|EC981699.1|EC981699
EST:     CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
EST: gi|110392482|gb|EC957934.1|EC957934
EST:     CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
EST: gi|27586450|gb|CB009145.1|CB009145
EST:     CTCGGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCGTGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAACC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
EST: gi|110402841|gb|EC963595.1|EC963595
EST:     CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
EST: gi|33408889|gb|CF214516.1|CF214516
EST:     CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
EST: gi|110409821|gb|EC975493.1|EC975493
EST:     CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
EST: gi|110694543|gb|EE071739.1|EE071739
EST:     CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC
EST: gi|110721737|gb|EE097352.1|EE097352
EST:     CTCGGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGC                         ATCCGTGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAACC
genomic: CTCAGTCCAGTTGCACTCCAATGCTCTTCGGAAACTCCCTCTCATGAGGCgtgagttgtc ... ttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttgatttgatttgattctattttattttacaaaatttgtttttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATCAGTTGGTCAAATGGGAGGCTAAGGTTGAAGAAGATCTCGATAAGTTGCT
                                           ttttgat  putative branch site (score: 4)
                                      tttgttttt  CT-rich tract
       atttgatttgattcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttgtcttcaactctttgattatttgatttgatttgattctattttattttacaaaatttgtttttgatttcagATCCATGGGAGCACGTGTTGGCGATTGGAATTGGGGCTGTTTTTGGGAATCAGTTGGTCAAATGGGAGGCTAAGGTTGAAGAAGATCTCGATAAGTTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG