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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcgcatatagatctgggctcaaacctttatttctggaaatgcgttcccaagacaaacggttagaagttgatatgttatacttctggttatatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGATGATCTGCAGTTTTCACCGTATCTTTAACCAAACCTTGCCTCATGTTAT

Basic information

species Vitis vinifera
transcript Vv14s0060g01920.t01
intron # 7
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|110697600|gb|EE074740.1|EE074740
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|110722653|gb|EE099067.1|EE099067
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAACTGCTGTGGCTGGAGGGACTGCATTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|87584110|gb|DY473391.1|DY473391
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCACTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|45368131|gb|CK906490.1|CK906490
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCACTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|110690622|gb|EE067882.1|EE067882
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGANGGACTGCATTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|32458352|gb|CD799526.1|CD799526
EST:     AGGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCACTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|83276359|gb|DV940367.1|DV940367
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCACTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|30297956|gb|CB974750.1|CB974750
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         GTGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|110387074|gb|EC951714.1|EC951714
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
EST: gi|51050864|gb|CO818767.1|CO818767
EST:     AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAG                         ATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA
genomic: AAGGAATTGGCGTGGATAACATGCATTACCTCAATGACGGGCTGTGGAAGgtactacttt ... atatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcccaagacaaacggttagaagttgatatgttatacttctggttatatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGATGATCTGCAGTTTTCACCGTATCTTTAACCAAACCTTGCCTCATGTTAT
                     agttgat  putative branch site (score: 5)
                          atatgttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtcgcatatagatctgggctcaaacctttatttctggaaatgcgttcccaagacaaacggttagaagttgatatgttatacttctggttatatttgcagATGGAGCGCCTGGATTGAAGCTGCTGTGGCTGGAGGGACTGCATTCATCGATGATCTGCAGTTTTCACCGTATCTTTAACCAAACCTTGCCTCATGTTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - -caaacct
- - - - - - - - - - - - - - - -tttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - gacaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctgg