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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgtacaaataattggactttgagcaaatgctcatattggcaagatcctctaaccagtggtttctgaggaattgataaccatcttatctgtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCAGCTGCAGACGATGTACGTTTCCTTCTTTACATCTATCACAAGATGATGG

Basic information

species Vitis vinifera
transcript Vv04s0008g00650.t01
intron # 6
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|156737847|gb|EV241968.1|EV241968
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|71863241|gb|DT012296.1|DT012296
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGT
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGT
EST: gi|71865061|gb|DT014116.1|DT014116
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATG
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATG
EST: gi|110722833|gb|EE099455.1|EE099455
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|30129707|gb|CB915046.1|CB915046
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|161721247|gb|FC070753.1|FC070753
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|161717589|gb|FC066263.1|FC066263
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|161714427|gb|FC063853.1|FC063853
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|110388273|gb|EC953007.1|EC953007
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|26267080|gb|CA818143.1|CA818143
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|71883347|gb|DT032402.1|DT032402
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|71864703|gb|DT013758.1|DT013758
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|110365546|gb|EC928709.1|EC928709
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|71859768|gb|DT008823.1|DT008823
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTT
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTT
EST: gi|161717170|gb|FC066568.1|FC066568
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|26265140|gb|CA816203.1|CA816203
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|110722784|gb|EE099350.1|EE099350
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAAGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|110385784|gb|EC950339.1|EC950339
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|110724849|gb|EE101037.1|EE101037
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|161715652|gb|FC066797.1|FC066797
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|110720108|gb|EE095742.1|EE095742
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAAGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGGA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|34542987|gb|CF511219.1|CF511219
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|161719650|gb|FC067994.1|FC067994
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|161721651|gb|FC069781.1|FC069781
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAA                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|33409202|gb|CF214829.1|CF214829
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTGCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
EST: gi|110367167|gb|EC931093.1|EC931093
EST:     GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG                         AACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA
genomic: GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGgtttgttcct ... gtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcctctaaccagtggtttctgaggaattgataaccatcttatctgtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCAGCTGCAGACGATGTACGTTTCCTTCTTTACATCTATCACAAGATGATGG
                            tgataac  putative branch site (score: 2)
                                              tcatccc  putative PPT
                         aattgataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgtacaaataattggactttgagcaaatgctcatattggcaagatcctctaaccagtggtttctgaggaattgataaccatcttatctgtcatcccagAACCCTGATTTTTGGACGCACAGACCCTTATCTGACCTGATGGTCCGGGCAGCTGCAGACGATGTACGTTTCCTTCTTTACATCTATCACAAGATGATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - caaataa
- - - - - - - - - - - - - -aatgctc
- - - - - - - - - - - - - - - - - - - - - - - -cctctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataacca