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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaaataatccaagcctcaattttaggaaatgagttgttgatatcttcataataataatagatgcttccttgtgtagGCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTAATGACCAATGATGTTGCTGACACTAATCCTGAAGAGGCTGTTCCCTGCT

Basic information

species Vitis vinifera
transcript Vv09s0002g08370.t01
intron # 19
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|71861393|gb|DT010448.1|DT010448
EST:     TTCATTTTCTTTGGAAGTGGCAGCGCAATGATCGTAATTCGAGTGGCAAG                         GCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTA
genomic: TTCATTTTCTTTGGAAGTGGCAGCGCAATGATCGTAATTCGAGTGGCAAGgtacaaataa ... ccttgtgtagGCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTA
EST: gi|71861049|gb|DT010104.1|DT010104
EST:     TAATTCGAGTGGCAAG                         GCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTA
genomic: TAATTCGAGTGGCAAGgtacaaataa ... ccttgtgtagGCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTA
EST: gi|71860540|gb|DT009595.1|DT009595
EST:     TAATTCGAGTGGCAAG                         GCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTA
genomic: TAATTCGAGTGGCAAGgtacaaataa ... ccttgtgtagGCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaggaaatgagttgttgatatcttcataataataatagatgcttccttgtgtagGCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTAATGACCAATGATGTTGCTGACACTAATCCTGAAGAGGCTGTTCCCTGCT
             tgttgat  putative branch site (score: 4)
                                        tgcttcctt  putative PPT
               ttgatatcttcataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacaaataatccaagcctcaattttaggaaatgagttgttgatatcttcataataataatagatgcttccttgtgtagGCAACTGCCACTGTTTCACCTCAATTATGGCAACCAACAAGTGGCATTCTAATGACCAATGATGTTGCTGACACTAATCCTGAAGAGGCTGTTCCCTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT