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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgctattatgttggttactctgtggactagcaggggagaatggtgaatttaaatatctgttcctattcattattcaattttacttcttttcttctgtgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGCTCAAATTGGATTACAGAAGCCATCAAGTTCAACATTAGCAAAAGTGGCT

Basic information

species Vitis vinifera
transcript Vv19s0027g00380.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|110708780|gb|EE086709.1|EE086709
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGG-CATCCTGCTACTAN                         TGAACGTTGGGTATTGCCTTCA-CAATGGAATATGCAAGGGGCCTTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
EST: gi|32246982|gb|CD712801.1|CD712801
EST:     GTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACGTTTGGTATTGCATTCAACAATGGAGTATGCAAGGGGCATTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
EST: gi|32246630|gb|CD712449.1|CD712449
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACGTTTGGTATTGCATTCAACAATGGAGTATGCAAGGGGCATTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
EST: gi|30323287|gb|CD006549.1|CD006549
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACGTTTGGTATTGCATTCAACAATGGAGTATGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGC
EST: gi|26258185|gb|CA809248.1|CA809248
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACATTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
EST: gi|110733105|gb|EE109004.1|EE109004
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
EST: gi|27579341|gb|CB002036.1|CB002036
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACGTTTGGTATTGCATTCAACAATGGAGTATGCAAGGGGCATTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
EST: gi|27581160|gb|CB003855.1|CB003855
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACGTTTGGTATTGCATTCAACAATGGAGTATGCAAGGGGCATTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC
EST: gi|27580311|gb|CB003006.1|CB003006
EST:     CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG                         TGAACGTTTGGTATTGCATTCAACAATGGAGTATGCAAGGGGCATTGTTGC
genomic: CTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAGgtaagtgcta ... tgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatatctgttcctattcattattcaattttacttcttttcttctgtgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGCTCAAATTGGATTACAGAAGCCATCAAGTTCAACATTAGCAAAAGTGGCT
                          ttttacttcttttctt  CT-rich tract
            tattcattattcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgctattatgttggttactctgtggactagcaggggagaatggtgaatttaaatatctgttcctattcattattcaattttacttcttttcttctgtgccacaaagTGAACGTTGGGTATTGCATTCAACAATGGAGTATGCAAGGGGCGTTGTTGCTCAAATTGGATTACAGAAGCCATCAAGTTCAACATTAGCAAAAGTGGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC