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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttccaaacacccaaaaccctaataccccctttttcaattcctttgaatctgaaattttgtttcttaatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTGCTCTTTCTTCTGGTTCCGCCGATGGATCGGCTCCTTCTG

Basic information

species Vitis vinifera
transcript Vv11s0016g02120.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|349813672|gb|FQ413906.1|FQ413906
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|27581864|gb|CB004559.1|CB004559
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|110715741|gb|EE094134.1|EE094134
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|351021773|gb|FQ437158.1|FQ437158
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|349814495|gb|FQ399135.1|FQ399135
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|294966348|gb|GW837599.1|GW837599
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|110694056|gb|EE070826.1|EE070826
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAATTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|110699500|gb|EE076555.1|EE076555
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|110698221|gb|EE075521.1|EE075521
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|351055019|gb|FQ440358.1|FQ440358
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
EST: gi|349808342|gb|FQ405486.1|FQ405486
EST:     GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAG                         AGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG
genomic: GCCCTGGTTGATCCAAAACGCGCCTGATCTCTACCCCGATCTCCTTAAAGgttttccaaa ... taatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taataccccctttttcaattcctttgaatctgaaattttgtttcttaatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTGCTCTTTCTTCTGGTTCCGCCGATGGATCGGCTCCTTCTG
                                          tcttaat  putative branch site (score: 3)
                                   ttttgtttctt  CT-rich tract
                                aaattttgtttcttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttccaaacacccaaaaccctaataccccctttttcaattcctttgaatctgaaattttgtttcttaatgcgcagAGGCTGATTCAAAGGAAGCTGATAAAGTTGCTCAGCAATTACAGTCGACTGCTCTTTCTTCTGGTTCCGCCGATGGATCGGCTCCTTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA