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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaagaaagcaacaacaacaagagcaatatcatttttcattttttttttctcttgaatctccgcatttggttcatgcttccattctctcaatcgatctgaagttttttttttttttttcctttcttttgttggtactgaaattgtggactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGGCCCAATTGAAGGAGCTGAAAGCAGAGCTCGCTCTTCTCCGAGTCGCCAA

Basic information

species Vitis vinifera
transcript Vv06s0004g04020.t01
intron # 2
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|77582082|gb|DV219992.1|DV219992
EST:     GAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110425325|gb|EC991709.1|EC991709
EST:     TGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: TGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|34320321|gb|CF373075.1|CF373075
EST:     GAGAAGGACGCCGTT-CGGATCACG-AGACACACAC-TGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110415159|gb|EC981036.1|EC981036
EST:     CGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: CGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110702387|gb|EE081039.1|EE081039
EST:     AAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: AAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|77587627|gb|DV222989.1|DV222989
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|37187679|gb|CF607032.1|CF607032
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|77587434|gb|DV222862.1|DV222862
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110709538|gb|EE085096.1|EE085096
EST:     ACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: ACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110400689|gb|EC967263.1|EC967263
EST:     GACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|71872376|gb|DT021431.1|DT021431
EST:     GCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|18458635|gb|BM436913.1|BM436913
EST:     TGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: TGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110715141|gb|EE092854.1|EE092854
EST:     AGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: AGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110417031|gb|EC983052.1|EC983052
EST:     GGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110411436|gb|EC977149.1|EC977149
EST:     GTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110379354|gb|EC944541.1|EC944541
EST:     CGCCGTTGCGGATCACGAAGACACACACATGG                         T
genomic: CGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaag-
EST: gi|110379354|gb|EC944541.1|EC944541
EST:     CGCCGTTGCGGATCACGAAGACACACACATGG                         T
genomic: CGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaag-
EST: gi|110424241|gb|EC990597.1|EC990597
EST:     GAGAAGGACGCCGTTGCGGATCAGGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110416845|gb|EC982851.1|EC982851
EST:     GGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110702424|gb|EE081124.1|EE081124
EST:     CGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: CGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110389831|gb|EC954702.1|EC954702
EST:     GCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|37188865|gb|CF608214.1|CF608214
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|71865913|gb|DT014968.1|DT014968
EST:     GAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110700515|gb|EE078639.1|EE078639
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|34415997|gb|CF414751.1|CF414751
EST:     GAGAAGGCCGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|71872195|gb|DT021250.1|DT021250
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110703963|gb|EE081358.1|EE081358
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGAC-CACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110692515|gb|EE071849.1|EE071849
EST:     GAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|30320471|gb|CD003733.1|CD003733
EST:     TGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: TGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|34319337|gb|CF372091.1|CF372091
EST:     GAGAAGGACGCCGTTGCGGATTCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGA-TCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|34320531|gb|CF373285.1|CF373285
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGNCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110413182|gb|EC978959.1|EC978959
EST:     GCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110381127|gb|EC946445.1|EC946445
EST:     AGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: AGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110725977|gb|EE102998.1|EE102998
EST:     CACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: CACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110391161|gb|EC956118.1|EC956118
EST:     GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: GAGAAGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110387243|gb|EC951897.1|EC951897
EST:     AGGACGCCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: AGGACGCCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
EST: gi|110364945|gb|EC928567.1|EC928567
EST:     CGCCGTTGCGGATCACGAAGACACACACATGNG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTG
genomic: CGCCGTTGCGGATCACGAAGACACACACATG-Ggtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTG
EST: gi|110367672|gb|EC931618.1|EC931618
EST:     CCGTTGCGGATCACGAAGACACACACATGG                         CGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG
genomic: CCGTTGCGGATCACGAAGACACACACATGGgtaagaagaa ... gactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttttttttttttttcctttcttttgttggtactgaaattgtggactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGGCCCAATTGAAGGAGCTGAAAGCAGAGCTCGCTCTTCTCCGAGTCGCCAA
     ttttttttttttcctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaagaaagcaacaacaacaagagcaatatcatttttcattttttttttctcttgaatctccgcatttggttcatgcttccattctctcaatcgatctgaagttttttttttttttttcctttcttttgttggtactgaaattgtggactgaaaagCGAGGATCAAGGTTCACGAGCTGAGAGGTAAGCCTAAGGCCGATCTGTTGGCCCAATTGAAGGAGCTGAAAGCAGAGCTCGCTCTTCTCCGAGTCGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT