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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgctctcccttcttcatctttcttcctttttttttttttttaattttattattattccttttttagattagcagcctaatcggttgtttctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAAGCTCAAATCCCTCAGCGAATCCGATCATGCTGCCAATGTCAAT

Basic information

species Vitis vinifera
transcript Vv14s0068g00800.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|71860322|gb|DT009377.1|DT009377
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATGCTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|351039919|gb|FQ464957.1|FQ464957
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|351032434|gb|FQ458799.1|FQ458799
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|110713687|gb|EE089836.1|EE089836
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|351054689|gb|FQ462719.1|FQ462719
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|351016153|gb|FQ435473.1|FQ435473
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|110718584|gb|EE095585.1|EE095585
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|30252786|gb|CB970337.1|CB970337
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|110405448|gb|EC970989.1|EC970989
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|110406346|gb|EC971916.1|EC971916
EST:     CGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: CGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|351034888|gb|FQ458245.1|FQ458245
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|352773913|gb|FQ473045.1|FQ473045
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|37184531|gb|CF603885.1|CF603885
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|110713854|gb|EE090137.1|EE090137
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|110700860|gb|EE077882.1|EE077882
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|110423298|gb|EC989640.1|EC989640
EST:     CGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: CGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|351031591|gb|FQ459848.1|FQ459848
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|349824290|gb|FQ417701.1|FQ417701
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|294965922|gb|GW839261.1|GW839261
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCACAGGATACTGCAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAA
EST: gi|351027941|gb|FQ425842.1|FQ425842
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA
EST: gi|34542448|gb|CF510680.1|CF510680
EST:     GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCT                         GCATAGTTCGAGGCAAAGGATACCGCAATTGGTAAAGGAGACCTCCGCTAA
genomic: GTCGATGCCATCGGAACCTCCAAGGACACTCCTGATCACCGTCAGAAGCTgtctgctctc ... tctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattattattccttttttagattagcagcctaatcggttgtttctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAAGCTCAAATCCCTCAGCGAATCCGATCATGCTGCCAATGTCAAT
                              gcctaat  putative branch site (score: 3)
                                        ttgtttctttc  putative PPT
     ttattattcctttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgctctcccttcttcatctttcttcctttttttttttttttaattttattattattccttttttagattagcagcctaatcggttgtttctttcgcagGCATAGTTCGAGGCAAAGGATACTGCAATTGGTAAAGGAGACCTCCGCTAAGCTCAAATCCCTCAGCGAATCCGATCATGCTGCCAATGTCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC