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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattctatccatttatcgttggcttggatcagtgtataagttgtggattagaaccaattgagataactttaatcaaactcgctattggatcagctgtcattgtgtcatcaaggtagtcaaatttactaaatcgtttacattctatgcatttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCCTTTGTGAGCAGAGCAGGGATCGAGACTGTTGACGTCTTGACTCCAAAGG

Basic information

species Vitis vinifera
transcript Vv14s0060g01280.t01
intron # 5
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|30303713|gb|CB980507.1|CB980507
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|110710234|gb|EE086401.1|EE086401
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|110692572|gb|EE071970.1|EE071970
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|110726314|gb|EE101985.1|EE101985
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|30299286|gb|CB976080.1|CB976080
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACATCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|110718290|gb|EE094955.1|EE094955
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|110719241|gb|EE096994.1|EE096994
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|110703428|gb|EE080264.1|EE080264
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|294965221|gb|GW838908.1|GW838908
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|110723031|gb|EE099877.1|EE099877
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAA                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|34550177|gb|CF518395.1|CF518395
EST:     GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GAACTGATGCTCTGGATGCTGCTGGAAACACCACTGCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
EST: gi|18458099|gb|BM436377.1|BM436377
EST:     GCTGCCATTGGCAAG                         GGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC
genomic: GCTGCCATTGGCAAGgtaaattcta ... atttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcatcaaggtagtcaaatttactaaatcgtttacattctatgcatttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCCTTTGTGAGCAGAGCAGGGATCGAGACTGTTGACGTCTTGACTCCAAAGG
                     tactaaa  putative branch site (score: 1)
                                              tttgttc  putative PPT
              tcaaatttactaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattctatccatttatcgttggcttggatcagtgtataagttgtggattagaaccaattgagataactttaatcaaactcgctattggatcagctgtcattgtgtcatcaaggtagtcaaatttactaaatcgtttacattctatgcatttgttcagGGTTTCGCTATTGGATCAGCTGCTCTTGTTTCTCTTGCTCTGTTTGGTGCCTTTGTGAGCAGAGCAGGGATCGAGACTGTTGACGTCTTGACTCCAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG