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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatttgggagttttgcagaaacattagattttcttggttatagaattgtataggagaactatgcagtttgtaagaagatcgatcttttcatttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAAAGATTACCAACAGAGGAAGAGATAATAGAAAAGGTTGGAATCTCCCCTG

Basic information

species Vitis vinifera
transcript Vv16s0050g02520.t01
intron # 4
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|34550585|gb|CF518803.1|CF518803
EST:     GCTCCATGACACTCTCAAGCTTTATACGCGTCTCCTTTGGCCTTGAGTCG                         GTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
genomic: GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCGgtatgctttc ... atttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
EST: gi|161721747|gb|FC071120.1|FC071120
EST:     GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCG                         GTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
genomic: GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCGgtatgctttc ... atttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
EST: gi|28964721|gb|CB343754.1|CB343754
EST:     GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCG                         GTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
genomic: GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCGgtatgctttc ... atttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
EST: gi|34550673|gb|CF518891.1|CF518891
EST:     GCTCCATGACACTCTCAAGCTTTATACGCGTCTCCTTTGGCCTTGAGTCG                         GTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
genomic: GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCGgtatgctttc ... atttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
EST: gi|110719640|gb|EE094946.1|EE094946
EST:     GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCG                         GTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
genomic: GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCGgtatgctttc ... atttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
EST: gi|28964869|gb|CB343902.1|CB343902
EST:     GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCG                         GTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA
genomic: GCTCCATGACACTCTCAAGCTTTACACGCGTCTCCTTTGGCCTTGAGTCGgtatgctttc ... atttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtataggagaactatgcagtttgtaagaagatcgatcttttcatttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAAAGATTACCAACAGAGGAAGAGATAATAGAAAAGGTTGGAATCTCCCCTG
                                      tcttttcatttctgc  CT-rich tract
                                        ttttcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atatttgggagttttgcagaaacattagattttcttggttatagaattgtataggagaactatgcagtttgtaagaagatcgatcttttcatttctgcagGTTAGGGTAGAAATCCAAAGAGCAAAACTAGAGTTGTTGTTCAAGCTCCAAAGATTACCAACAGAGGAAGAGATAATAGAAAAGGTTGGAATCTCCCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - cagaaac
- - - - - - - - - - - - - - - -ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - aggagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaga