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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcctacgttgatgaaatttcatcagatctaatgcttcctcagtacatttagtttggtggtgattttattttctagtgaaacttatggtaattataatgctgctggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG

Basic information

species Vitis vinifera
transcript Vv06s0080g00560.t01
intron # 5
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|294965150|gb|GW836981.1|GW836981
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGGAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|30320849|gb|CD004111.1|CD004111
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|30321318|gb|CD004580.1|CD004580
EST:     ACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: ACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|22014795|gb|BQ799829.1|BQ799829
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         G-TTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|71863030|gb|DT012085.1|DT012085
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|71859592|gb|DT008647.1|DT008647
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|71864994|gb|DT014049.1|DT014049
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|294963940|gb|GW836815.1|GW836815
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTATGTNTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|26257496|gb|CA808559.1|CA808559
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|71863516|gb|DT012571.1|DT012571
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCA
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCA
EST: gi|110385570|gb|EC950109.1|EC950109
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|352782096|gb|FQ469394.1|FQ469394
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|71865063|gb|DT014118.1|DT014118
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
EST: gi|71858886|gb|DT007941.1|DT007941
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCA
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCA
EST: gi|18459688|gb|BM437966.1|BM437966
EST:     GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAG                         GTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
genomic: GCTACCAGGAAAAGTTTTACTTCAATCCAGGCGACACTGGCTTTAAGgtgcctacgt ... tggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgattttattttctagtgaaacttatggtaattataatgctgctggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG
                        ttatggtaattataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcctacgttgatgaaatttcatcagatctaatgcttcctcagtacatttagtttggtggtgattttattttctagtgaaacttatggtaattataatgctgctggtgaacagGTTTTTGAAACTAAGTTTGCAAAAATTGGAGTTG

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