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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTCGAGACCAATGACGGGGTTGTGGCCGTCGCCAATCTTTGTGGGAAATCATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttctgctgatttcattgtctgtacttcgaaaaatgaaagggttttgctcaaattagagaattccagcctgcttattgttgaatggaactttta...

Basic information

species Vitis vinifera
transcript Vv17s0000g09390.t01
intron # 2
splice site 5'
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|349827639|gb|FQ422507.1|FQ422507
EST:     CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTG                         CAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
EST: gi|30251442|gb|CB969175.1|CB969175
EST:     CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTG                         CAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
EST: gi|349825024|gb|FQ415571.1|FQ415571
EST:     CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTG                         CAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
EST: gi|349816266|gb|FQ403762.1|FQ403762
EST:     CATTTGATTCTTCTATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTG                         CAGTCAAAGTTTGGATCGCATGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
EST: gi|110382393|gb|EC939358.1|EC939358
EST:     CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTG                         CAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
EST: gi|349829899|gb|FQ422212.1|FQ422212
EST:     CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTG                         CAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
EST: gi|110703698|gb|EE080772.1|EE080772
EST:     CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATT-                         --GTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
EST: gi|110385492|gb|EC950024.1|EC950024
EST:     CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTG                         CAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG
genomic: CATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttc ... ttttttccagCAGTCAAAGTTTGGATCGCAAGCAGAATTTTTTACTCCTTCAGGATCACTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTCGAGACCAATGACGGGGTTGTGGCCGTCGCCAATCTTTGTGGGAAATCATTTGATTCTTCGATCCGCAAGTTCACTTCTCGCTCTTCATTGCCATTGgtacgttttctgctgatttcattgtctgtacttcgaaaaatgaaagggttttgctcaaattagagaattccagcctgcttattgttgaatggaactttta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaagggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agagaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatggaa