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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatatgatgtgtcaaacattatcacagatttaatccttaatttgcatttagaattttttgcaaaataatattttctttttttgttttatttatttgtatttattcatgtttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGTGCCAAAACACAGCAG

Basic information

species Vitis vinifera
transcript Vv04s0023g03860.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|110376013|gb|EC941052.1|EC941052
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|110713128|gb|EE088780.1|EE088780
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|110390015|gb|EC954898.1|EC954898
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|46918251|gb|CN547580.1|CN547580
EST:     TCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: TCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|110396036|gb|EC961711.1|EC961711
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|87586594|gb|DY474807.1|DY474807
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|110404309|gb|EC969170.1|EC969170
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|33410493|gb|CF216120.1|CF216120
EST:     AGCAGTTCTTCGTAGACCATCCTGGTGCTGTGCCCATCTCTGCTGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
EST: gi|110366542|gb|EC930452.1|EC930452
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAG                         GGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatg ... ttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatattttctttttttgttttatttatttgtatttattcatgtttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGTGCCAAAACACAGCAG
                                            tttcatcc  CT-rich tract
     attttctttttttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaatatgatgtgtcaaacattatcacagatttaatccttaatttgcatttagaattttttgcaaaataatattttctttttttgttttatttatttgtatttattcatgtttcatccaagGGAGAGGAGCTGAAGAGGCTGATTGATGCCCCTGCTTACATAGAATGCAGTGCCAAAACACAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT