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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagatattttgctgaattctttgaccttgttgggcggggttcttgagtcctcagctttattctttcttgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATTGCCAATGTTGGTCCACATTTTAAGGAGGTTAATAGTTTCTTGTGGCCCT

Basic information

species Vitis vinifera
transcript Vv09s0070g00130.t01
intron # 5
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|110424125|gb|EC990481.1|EC990481
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|110707697|gb|EE084394.1|EE084394
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|110729308|gb|EE105444.1|EE105444
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|71882306|gb|DT031361.1|DT031361
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|110723130|gb|EE100088.1|EE100088
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|32245909|gb|CD711728.1|CD711728
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|110702626|gb|EE078762.1|EE078762
EST:     AGATAGAAAGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|30134184|gb|CB919522.1|CB919522
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCAT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCAT
EST: gi|46910138|gb|CN545513.1|CN545513
EST:     AGATAGAAGGGCAGAAAGTTCCTTTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|110370345|gb|EC929459.1|EC929459
EST:     GTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: GTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|71883321|gb|DT032376.1|DT032376
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
EST: gi|110731600|gb|EE106153.1|EE106153
EST:     AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAG                         GCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT
genomic: AGATAGAAGGGCAGAAAGTTCCTCTGACAGACAATAACATTATTGAACAGgtatgagata ... tgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaccttgttgggcggggttcttgagtcctcagctttattctttcttgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATTGCCAATGTTGGTCCACATTTTAAGGAGGTTAATAGTTTCTTGTGGCCCT
 ctttgac  putative branch site (score: 4)
                         tcctcagctttattct  putative PPT
                                 tttattcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgagatattttgctgaattctttgaccttgttgggcggggttcttgagtcctcagctttattctttcttgtttggcagGCGCTGGGGAAGCATGGCATTATGTGCATAGAAGATATTGTACACGAAATTGCCAATGTTGGTCCACATTTTAAGGAGGTTAATAGTTTCTTGTGGCCCT

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