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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaaagaaaactctgtcttcgtaataatggcattgattagttattcgttttctcatatatgatttcattttgaccaaaaatgtttgtatatctcctttag

Basic information

species Vitis vinifera
transcript Vv05s0020g01440.t01
intron # 3
splice site 5'
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|71877047|gb|DT026102.1|DT026102
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|77582258|gb|DV220092.1|DV220092
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|77578306|gb|DV217933.1|DV217933
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|77584529|gb|DV221330.1|DV221330
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|77581182|gb|DV219518.1|DV219518
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|110417657|gb|EC983731.1|EC983731
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|34415518|gb|CF414272.1|CF414272
EST:     ACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GAC-TGCAAAGTTGGAGGGTCAAAGTTGGACACTCAAGTTAAGGTCTANCG
genomic: ACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGA-GGTCAAAGTTGGACACTCAAGTTAAGGTCTACCG
EST: gi|110405060|gb|EC970590.1|EC970590
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|34319828|gb|CF372582.1|CF372582
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTGGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|110360839|gb|EC924252.1|EC924252
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|71872568|gb|DT021623.1|DT021623
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|71890487|gb|DT039542.1|DT039542
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|77578619|gb|DV218101.1|DV218101
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|77580102|gb|DV218941.1|DV218941
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|110379884|gb|EC945106.1|EC945106
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|71868186|gb|DT017241.1|DT017241
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|71873162|gb|DT022217.1|DT022217
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|71874260|gb|DT023315.1|DT023315
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|110417988|gb|EC984094.1|EC984094
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
EST: gi|351016864|gb|FQ424291.1|FQ424291
EST:     TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAG                         GACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT
genomic: TAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaa ... tctcctttagGACTTGCAAAGTTGGAGGTCAAAGTTGGACACTCAAGTTAAGGTCTACCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATTAAATGAATCAAGGACAGAGCTGCTTAGTAGAATTCAAGGGCTGAAACAGgtgaaatcaaagaaaactctgtcttcgtaataatggcattgattagttattcgttttctcatatatgatttcattttgaccaaaaatgtttgtatatctcctttag

- - - - - - - - - - AGAGCT
- - - - - - - - - - - AGCTGC
- - - - - - - - - - -  GCTGCT