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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttggcctttaattggtctatcttttgatattcttttaatgcaactttatcctttcctccctaattgtgatagaaattttcaatttattttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAGAAAGTTGCTGATGAAACGCATTCAGTAGAGAAAAGCACAAGTCTAGAGC

Basic information

species Vitis vinifera
transcript Vv15s0048g02010.t01
intron # 1
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|349829752|gb|FQ421270.1|FQ421270
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|349828504|gb|FQ417246.1|FQ417246
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|351029954|gb|FQ430696.1|FQ430696
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|349823414|gb|FQ423225.1|FQ423225
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|351015296|gb|FQ445580.1|FQ445580
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|351015511|gb|FQ447340.1|FQ447340
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|110713030|gb|EE088592.1|EE088592
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|352773646|gb|FQ472428.1|FQ472428
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|349817714|gb|FQ407703.1|FQ407703
EST:     TGCGTCCTCTCCAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCCAGAAGCCGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|351027217|gb|FQ444466.1|FQ444466
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|351026191|gb|FQ428203.1|FQ428203
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|110712065|gb|EE089258.1|EE089258
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|351025364|gb|FQ435056.1|FQ435056
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|34548045|gb|CF516277.1|CF516277
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG
EST: gi|351021880|gb|FQ437667.1|FQ437667
EST:     TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCC                         GGTGGGGATTCCAGCACAAAGAGGGCAAAGGTTGATCAAGAAGCAGAACAG
genomic: TGCGTCGTCTCAAGAGCATTGCTTCTGGTCGATCCTCCGTTTCTGATCCCgtaagttttc ... tttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actttatcctttcctccctaattgtgatagaaattttcaatttattttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAGAAAGTTGCTGATGAAACGCATTCAGTAGAGAAAAGCACAAGTCTAGAGC
               ccctaat  putative branch site (score: 3)
                                        tttattttctttt  putative PPT
                  taattgtgatagaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatttggcctttaattggtctatcttttgatattcttttaatgcaactttatcctttcctccctaattgtgatagaaattttcaatttattttcttttagGGTGGGGATTCCAGCACAAAGAGGGCAAAGGTCGATCAAGAAGCAGAACAGAAAGTTGCTGATGAAACGCATTCAGTAGAGAAAAGCACAAGTCTAGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - -aatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atagaaa