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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgtagtgatggtttttgatttggctttggtgaattatacttttgttggggatcaaaatcttgtttactgtttatttaggagttgtgttttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGGTCTCAACCCGATAAAAGTTCTAGGGTAGTCCCTATGTCAATCATGTTTG

Basic information

species Vitis vinifera
transcript Vv02s0033g01120.t01
intron # 1
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|110705273|gb|EE081966.1|EE081966
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|37183944|gb|CF603298.1|CF603298
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|110724515|gb|EE100409.1|EE100409
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|110724258|gb|EE099928.1|EE099928
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|71855537|gb|DT004592.1|DT004592
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|110705287|gb|EE081996.1|EE081996
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|37183817|gb|CF603171.1|CF603171
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|110685058|gb|EE063045.1|EE063045
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACTGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
EST: gi|110723381|gb|EE100627.1|EE100627
EST:     AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCT-                         -GGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG
genomic: AGAGCTAGATTGAGGGTGTTCTTGCTGTTGTAGTAGTTGTTGTTCTTCTGgtgggtttgt ... ttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttggggatcaaaatcttgtttactgtttatttaggagttgtgttttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGGTCTCAACCCGATAAAAGTTCTAGGGTAGTCCCTATGTCAATCATGTTTG
                   tttactgtttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgtagtgatggtttttgatttggctttggtgaattatacttttgttggggatcaaaatcttgtttactgtttatttaggagttgtgttttggccatgcAGGTAGTTGATAGTTTCTGGGAAAATGAAGCATAAAGATGGAAAACCGGGGTCTCAACCCGATAAAAGTTCTAGGGTAGTCCCTATGTCAATCATGTTTG

- - - gtgatgg
- - - - - - - - - - - tggcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - caaaatc