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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catttaaaatattatttgttatgttctccagaattgattcatgccttaaatacagggaattcctttgaatccgctaattctggacttatttattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGTGCCCGCAGACCAGGTCTCCTGCTCTCCACAATGAGGGCTCTGGACAACC

Basic information

species Vitis vinifera
transcript Vv14s0068g01200.t01
intron # 2
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|110419904|gb|EC986158.1|EC986158
EST:     AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGG                         GTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
genomic: AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGGgtaaatttca ... tattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
EST: gi|351026770|gb|FQ436423.1|FQ436423
EST:     AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGG                         GTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
genomic: AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGGgtaaatttca ... tattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
EST: gi|22015086|gb|BQ800120.1|BQ800120
EST:     AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGG                         GTGGAGGTAAGGGTAAGAGAAGGAAGGCCTGTAAACATTCATATGTTTTGT
genomic: AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGGgtaaatttca ... tattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
EST: gi|352769004|gb|FQ468195.1|FQ468195
EST:     AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGG                         GTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
genomic: AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGGgtaaatttca ... tattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
EST: gi|71869310|gb|DT018365.1|DT018365
EST:     AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGG                         GTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT
genomic: AAGAGCTATGCCCTAGCTCATTGCCAAGCCCTAAAAGTCAACCAGCAAGGgtaaatttca ... tattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaatacagggaattcctttgaatccgctaattctggacttatttattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGTGCCCGCAGACCAGGTCTCCTGCTCTCCACAATGAGGGCTCTGGACAACC
                          cgctaat  putative branch site (score: 3)
                                           tttatttt  putative PPT
                                      acttatttattttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catttaaaatattatttgttatgttctccagaattgattcatgccttaaatacagggaattcctttgaatccgctaattctggacttatttattttgtagGTGGAGGTAAGGGTAAGAGAAGGAAGGGCTGTAAACATTCATATGTTTTGTGCCCGCAGACCAGGTCTCCTGCTCTCCACAATGAGGGCTCTGGACAACC

- - -aaaatat
- - - - - - - - - - - - -ctccaga
- - - - - - - - - - - - - - - - - - - tcatgcc
- - - - - - - - - - - - - - - - - - - - - - - -aaataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attctgg