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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacattgatctttagcctaagccattccattcttcagactgagttgagttgtcttgatcctgagctcctattctgatctggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCCCACAAGGCAGCTGTGATAGGTGACACAATCGGCGATCCCCTCAAGGACA

Basic information

species Vitis vinifera
transcript Vv14s0060g01280.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|30303713|gb|CB980507.1|CB980507
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTTTAGGCCCCCAAGGGGTCAGACCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCC-AAGGGGTCAGACCC
EST: gi|30126995|gb|CB912334.1|CB912334
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTTTAGGCCCCAAGGGGTCAGACCCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC
EST: gi|110710234|gb|EE086401.1|EE086401
EST:     CAACTTCCAACACAGGTGGGGCATGGGAAAATGCAAAGAAATATATAGAA                         GCCGGTGCTTCTGAGCAAGCTCAGAAATCAAGGCCCCAATGGGGTCAAACC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAG-TCTAGGCCCCAA-GGGGTCAGACC
EST: gi|110718290|gb|EE094955.1|EE094955
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATANAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAAGGGTCAGACCCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC
EST: gi|110731040|gb|EE108804.1|EE108804
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTCTAAGCCCCAAGGGGTCAGACCCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC
EST: gi|110703428|gb|EE080264.1|EE080264
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTCTAAGCCCCAAGGGGTCAGACCCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC
EST: gi|110376741|gb|EC941814.1|EC941814
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC
EST: gi|34550177|gb|CF518395.1|CF518395
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTTTAGGCCCCAAGGGGTCAGACCCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC
EST: gi|18458099|gb|BM436377.1|BM436377
EST:     CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAG                         GCCGGTGCTTCTGAGCATGCTCGGAGTTTAGGCCCCAAGGGGTCAGACCCC
genomic: CAGCTTCCAACACAGGTGGGGCATGGGATAATGCAAAGAAATATATAGAGgtaacattga ... ggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagactgagttgagttgtcttgatcctgagctcctattctgatctggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCCCACAAGGCAGCTGTGATAGGTGACACAATCGGCGATCCCCTCAAGGACA
                                    ttctgat  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacattgatctttagcctaagccattccattcttcagactgagttgagttgtcttgatcctgagctcctattctgatctggttctgcagGCCGGTGCTTCTGAGCATGCTCGGAGTCTAGGCCCCAAGGGGTCAGACCCCCACAAGGCAGCTGTGATAGGTGACACAATCGGCGATCCCCTCAAGGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG