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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcacctacaggttaattgttatttctctatgtagcagttgccaagctattttgttctctttccagttttataaacttttattcaaattttgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCTCAACTG

Basic information

species Vitis vinifera
transcript Vv00s0199g00300.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|30305483|gb|CB982277.1|CB982277
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|26264487|gb|CA815550.1|CA815550
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|110430090|gb|EC996619.1|EC996619
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|110427936|gb|EC994392.1|EC994392
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|30305543|gb|CB982337.1|CB982337
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|110400854|gb|EC967435.1|EC967435
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|254916749|gb|GR905575.1|GR905575
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|110732470|gb|EE107786.1|EE107786
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|26266668|gb|CA817731.1|CA817731
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
EST: gi|110378899|gb|EC944055.1|EC944055
EST:     TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACA                         GTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT
genomic: TGGACGAAGAGATCACGGGTCTCCACAAGAAAGTTACAATGCTCAAAACAgtacgatttc ... tgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctattttgttctctttccagttttataaacttttattcaaattttgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCTCAACTG
                                          ttttgcttt  CT-rich tract
                     ttttataaacttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcacctacaggttaattgttatttctctatgtagcagttgccaagctattttgttctctttccagttttataaacttttattcaaattttgctttgcagGTAGCTCAAGAGATCGAGTCAGAAGCAAAATTTCAGAATGACTATATTTCTCAACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- cacctac
- - - - - - - - - - - - -ctctatg
- - - - - - - - - - - - - - - - - - - - -ccaagct