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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catggatcccataggcttaataactattaaccatatagaaccctttacatcatggatctctttaggtggttctgatttgtcaagggtgttttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCATACTTAAACACCTATGATGGGCGGACCATTCGCTACCCAGACCCACTGA

Basic information

species Vitis vinifera
transcript Vv13s0067g01820.t01
intron # 3
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|110725551|gb|EE102184.1|EE102184
EST:     ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAG                         TTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
genomic: ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAGgtcagtttat ... ttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
EST: gi|26267144|gb|CA818207.1|CA818207
EST:     ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAG                         TTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
genomic: ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAGgtcagtttat ... ttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
EST: gi|110686698|gb|EE064634.1|EE064634
EST:     ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAG                         TTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
genomic: ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAGgtcagtttat ... ttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
EST: gi|161717629|gb|FC066908.1|FC066908
EST:     ACACCAAGGGCCGGTTCCAACTCCACTCAGTTAGGGATGAAGAGGCAAAG                         TTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
genomic: ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAGgtcagtttat ... ttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
EST: gi|110708636|gb|EE086405.1|EE086405
EST:     ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAG                         TTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA
genomic: ACACCAAGGGCCGGTTCCGACTCCACTCAGTTAGGGATGAAGAGGCAAAGgtcagtttat ... ttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatcatggatctctttaggtggttctgatttgtcaagggtgttttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCATACTTAAACACCTATGATGGGCGGACCATTCGCTACCCAGACCCACTGA
                        ttctgat  putative branch site (score: 3)
                                         tgttttctct  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catggatcccataggcttaataactattaaccatatagaaccctttacatcatggatctctttaggtggttctgatttgtcaagggtgttttctctgcagTTTAAGCTCTGCAAGGTCCGTTCTGTCCAGTTTGGGCAGAAGGGCATCCCATACTTAAACACCTATGATGGGCGGACCATTCGCTACCCAGACCCACTGA

- - -atcccat
- - - - - - - - - - - - - - aaccata
- - - - - - - - - - - - - - - - - - - - cccttta
- - - - - - - - - - - - - - - - - - - - - - - -catcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggtgtt