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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

atctcatatctggatttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCAAAAGA

Basic information

species Vitis vinifera
transcript Vv00s0551g00020.t01
intron # 4
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|110703558|gb|EE080507.1|EE080507
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGNAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|33407595|gb|CF213222.1|CF213222
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAAT
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAAT
EST: gi|110700799|gb|EE077771.1|EE077771
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATAACTGAGAGTATTGTT
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTT
EST: gi|110381615|gb|EC934931.1|EC934931
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110399445|gb|EC965951.1|EC965951
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTT
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTT
EST: gi|110412621|gb|EC978376.1|EC978376
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|34416789|gb|CF415543.1|CF415543
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110690149|gb|EE066996.1|EE066996
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110692988|gb|EE068826.1|EE068826
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110365611|gb|EC928892.1|EC928892
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110419172|gb|EC985379.1|EC985379
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|27583152|gb|CB005847.1|CB005847
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110420814|gb|EC987095.1|EC987095
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|71870004|gb|DT019059.1|DT019059
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGGTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAA-TTTT
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTT
EST: gi|71881635|gb|DT030690.1|DT030690
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110686859|gb|EE063761.1|EE063761
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110402422|gb|EC960133.1|EC960133
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110724942|gb|EE101221.1|EE101221
EST:     GCACATTGCTTGGTACNNNNNNNNGGTTACTGTTATCTGGATTTT-AGAC                         ATCTCATTTTGAATTTGAA-TTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|33407506|gb|CF213133.1|CF213133
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTA
EST: gi|110372431|gb|EC936595.1|EC936595
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|46918295|gb|CN547624.1|CN547624
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110696465|gb|EE072606.1|EE072606
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|71869210|gb|DT018265.1|DT018265
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAA-TTTTGG
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGG
EST: gi|110422522|gb|EC988847.1|EC988847
EST:     GCACATTGCTTGGTACNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
genomic: GCACATTGCTTGGTACTTTTTTTTGTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCA
EST: gi|110402104|gb|EC968738.1|EC968738
EST:     CACATTGCTTGGTACNNNNNNNNNGTTTACTGTTATCTGGATTTTTAGAC                         ATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTC
genomic: CACATTGCTTGGTACTTTTTTTT-GTTTACTGTTATCTGGATTTTTAGACatctcatatc ... atttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctcatatctggatttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCAAAAGA
                                                                             ttttt  CT-rich tract
                                             atttttaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atctcatatctggatttttagacATCTCATTTTGAATTTGAAATTTTGGAGATATACCTGAGAGTATTGTTTCAAAAGA

- - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - -  GGAGAT