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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaaggactgcactataattcctttattttcatatatttccaagtatggagcttaaggtaatcatcaccaaaatcggtgttgtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA

Basic information

species Vitis vinifera
transcript Vv04s0008g05020.t01
intron # 6
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|110695697|gb|EE074010.1|EE074010
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110724001|gb|EE099447.1|EE099447
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110395970|gb|EC961644.1|EC961644
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110723317|gb|EE100491.1|EE100491
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110370561|gb|EC930011.1|EC930011
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110703623|gb|EE080641.1|EE080641
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110724830|gb|EE101011.1|EE101011
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110718100|gb|EE094549.1|EE094549
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|29783439|gb|CB349598.2|CB349598
EST:     GATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110722837|gb|EE099459.1|EE099459
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110697462|gb|EE074469.1|EE074469
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|110399139|gb|EC965632.1|EC965632
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGT
EST: gi|29782694|gb|CB348226.2|CB348226
EST:     AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGG                         GGATCCTAATTTG
genomic: AATTATAATTTTGAGAAGCCTTTTCTCTACCTCGCCAGGAAACTTGCTGGgtaaggaagg ... gtggtggcagGGATCCTAATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccaagtatggagcttaaggtaatcatcaccaaaatcggtgttgtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA
                      taatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggaaggactgcactataattcctttattttcatatatttccaagtatggagcttaaggtaatcatcaccaaaatcggtgttgtggtggcagGGATCCTAATTTGCATTTTGTCGAGTCTCCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC