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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttcacttcattttcgtcatttttttcctgtattctctcaaaattcaattatggaatcatttctacttgtctctgtaatctttcctttcctctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGAG

Basic information

species Vitis vinifera
transcript Vv06s0004g04700.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|110362261|gb|EC925781.1|EC925781
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|34320123|gb|CF372877.1|CF372877
EST:     ATTTCTCAACCTCACCGTAGACGNNNNNNNGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: ATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110424097|gb|EC990451.1|EC990451
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110713192|gb|EE088900.1|EE088900
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|34545250|gb|CF513482.1|CF513482
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110686881|gb|EE063803.1|EE063803
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|32458600|gb|CD799774.1|CD799774
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110365199|gb|EC927802.1|EC927802
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110380640|gb|EC945923.1|EC945923
EST:     CATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: CATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110717262|gb|EE092966.1|EE092966
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|34320345|gb|CF373099.1|CF373099
EST:     GCAACCCATTTCTCAACCTCA-CGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110384561|gb|EC949005.1|EC949005
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110702521|gb|EE081333.1|EE081333
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110711893|gb|EE088894.1|EE088894
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110381069|gb|EC946383.1|EC946383
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|34545330|gb|CF513562.1|CF513562
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110385580|gb|EC950119.1|EC950119
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|110378520|gb|EC943657.1|EC943657
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
EST: gi|34545089|gb|CF513321.1|CF513321
EST:     GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACT                         GTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA
genomic: GCAACCCATTTCTCAACCTCACCGTAGACGGTTTTTTGAAGATCGGAACTgtaacttcac ... tctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattatggaatcatttctacttgtctctgtaatctttcctttcctctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGAG
              tttctacttgtctctg  CT-rich tract
         aatcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacttcacttcattttcgtcatttttttcctgtattctctcaaaattcaattatggaatcatttctacttgtctctgtaatctttcctttcctctctctcagGTGGCAGCTGCCAGAGCCGCAGCCGAGGAAGCTTACTACGTCGTCAAAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC