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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaccacttcaactcccaattaaaacaagaagtattcaaaccctagcggttaatatggttgatttttttactcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAGACTCCTCAATTTGACAATTGTTAGTCCTTGGCGGCCATGGTTTGTTGAT

Basic information

species Vitis vinifera
transcript Vv03s0088g00260.t01
intron # 11
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|27580144|gb|CB002839.1|CB002839
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|18459085|gb|BM437352.1|BM437352
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|56689523|gb|CX127426.1|CX127426
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|56689599|gb|CX127502.1|CX127502
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|110427919|gb|EC994375.1|EC994375
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|351013068|gb|FQ433795.1|FQ433795
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|56689200|gb|CX127103.1|CX127103
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|32270477|gb|CD719636.1|CD719636
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|56689191|gb|CX127094.1|CX127094
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|56689470|gb|CX127373.1|CX127373
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTAGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|110731702|gb|EE106346.1|EE106346
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|33404926|gb|CF210553.1|CF210553
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTCCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|110414839|gb|EC980699.1|EC980699
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|56689140|gb|CX127043.1|CX127043
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|110416162|gb|EC982123.1|EC982123
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|33402582|gb|CF208209.1|CF208209
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGGTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|351040780|gb|FQ438324.1|FQ438324
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|33402673|gb|CF208300.1|CF208300
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|30321632|gb|CD004894.1|CD004894
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGGTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|110706704|gb|EE082465.1|EE082465
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|110698995|gb|EE077133.1|EE077133
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
EST: gi|56689653|gb|CX127556.1|CX127556
EST:     GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGT                         TGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG
genomic: GATGTTCACCGTTATCTCAGTAAAAAGCAGCTGGAAGTTCTTGTAGAAGTgtaagcacca ... actcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagaagtattcaaaccctagcggttaatatggttgatttttttactcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAGACTCCTCAATTTGACAATTGTTAGTCCTTGGCGGCCATGGTTTGTTGAT
                                      tttttttactcctgc  CT-rich tract
                         ttaatatggttgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcaccacttcaactcccaattaaaacaagaagtattcaaaccctagcggttaatatggttgatttttttactcctgcagTGGCGATCGCGACTTGGTTGTTCCATACCCGGGGGCGGTAGAATGGATTAGACTCCTCAATTTGACAATTGTTAGTCCTTGGCGGCCATGGTTTGTTGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC