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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccctcacgggagctataattatcttgaaagttaatttttttctcattgagaatgttgattgttttttgtgacaatgacaatgcatacatgtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCTTGGGAAGTGGCAACTGGGGAGAAGCGGCACTAATTCTTCCTCTGGGAGT

Basic information

species Vitis vinifera
transcript Vv10s0003g03120.t01
intron # 10
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|110396928|gb|EC962635.1|EC962635
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|30297699|gb|CB974493.1|CB974493
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|110377199|gb|EC942256.1|EC942256
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|32459190|gb|CD800364.1|CD800364
EST:     AGCGTGATTCACTTCGGATACGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|110370143|gb|EC934323.1|EC934323
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|30297767|gb|CB974561.1|CB974561
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTCCATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|110389282|gb|EC954107.1|EC954107
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|110695590|gb|EE073783.1|EE073783
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCATGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|51051195|gb|CO818934.1|CO818934
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|30297878|gb|CB974672.1|CB974672
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|34320115|gb|CF372869.1|CF372869
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|34363050|gb|CF404635.1|CF404635
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|22014004|gb|BQ799038.1|BQ799038
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|22012463|gb|BQ797497.1|BQ797497
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|110703836|gb|EE081029.1|EE081029
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCATGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
EST: gi|22015218|gb|BQ800252.1|BQ800252
EST:     AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAG                         GTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT
genomic: AGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgat ... gtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgagaatgttgattgttttttgtgacaatgacaatgcatacatgtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCTTGGGAAGTGGCAACTGGGGAGAAGCGGCACTAATTCTTCCTCTGGGAGT
        tgttgat  putative branch site (score: 4)
             attgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccctcacgggagctataattatcttgaaagttaatttttttctcattgagaatgttgattgttttttgtgacaatgacaatgcatacatgtttgtgcagGTGAGGCATGGGGTTGGCATAGAGGATATCGTGGACCACGTTTTACATGCTTGGGAAGTGGCAACTGGGGAGAAGCGGCACTAATTCTTCCTCTGGGAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
-ccctcac
- - - - - - - - - - - - - - - - - - - - - - - - gagaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgca