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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcagatagctggacatcctgtgcatcagaattatgccatattattcgatcattgtctttgaacccttctgttttatgtttctacttgtgatattagctttgctttctcgtaatttaaattgaccataaaaagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCAGAAAATGCTGCAAGGCTAAATATAGCAGAAGCTAAAATGAAAGAATTGA

Basic information

species Vitis vinifera
transcript Vv10s0003g02590.t01
intron # 5
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|77579639|gb|DV218672.1|DV218672
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|161714829|gb|FC063277.1|FC063277
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|351045795|gb|FQ440980.1|FQ440980
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|110384739|gb|EC949198.1|EC949198
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|110732518|gb|EE107876.1|EE107876
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|349832459|gb|FQ421020.1|FQ421020
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|110693825|gb|EE070405.1|EE070405
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|349808085|gb|FQ402476.1|FQ402476
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|110391854|gb|EC956857.1|EC956857
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
EST: gi|110699183|gb|EE075958.1|EE075958
EST:     GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAG                         GCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA
genomic: GTCATCTAGCTCAACGTTATAGCCGAATGAGACATGAAGCTGAGACACAGgtaaatcaga ... aagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgatattagctttgctttctcgtaatttaaattgaccataaaaagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCAGAAAATGCTGCAAGGCTAAATATAGCAGAAGCTAAAATGAAAGAATTGA
                                aattgac  putative branch site (score: 3)
                         taatttaaattgacca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatcagatagctggacatcctgtgcatcagaattatgccatattattcgatcattgtctttgaacccttctgttttatgtttctacttgtgatattagctttgctttctcgtaatttaaattgaccataaaaagcaaatagGCAGCTGAGGTTTCTAGAAGACAAGCTCGACTAAGAGAAGCTCCAAATCCAGAAAATGCTGCAAGGCTAAATATAGCAGAAGCTAAAATGAAAGAATTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
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