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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatcatcctggatggagctgttatgctttttggcttgaatttttatactgtttcttgacaatttgcttggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTTCTTCCCAAAACGTTTCCCAG

Basic information

species Vitis vinifera
transcript Vv03s0063g01870.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|30251788|gb|CB969521.1|CB969521
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|30251745|gb|CB969478.1|CB969478
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|351040914|gb|FQ443690.1|FQ443690
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|34550554|gb|CF518772.1|CF518772
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|110691456|gb|EE069582.1|EE069582
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|34549572|gb|CF517804.1|CF517804
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|77585907|gb|DV222055.1|DV222055
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|30131445|gb|CB916784.1|CB916784
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|34547558|gb|CF515790.1|CF515790
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT
EST: gi|77581551|gb|DV219724.1|DV219724
EST:     ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAG                         TGGTCAGGTTGGAAAATGGATTGCTTTTATTGCCGTAGTGCTGCGCCTCTT
genomic: ATCCCTTACATTTTCTTTAGTCTTCCTTCAATATTATTCAACTTTTTCAGgtaagcatca ... ggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctttttggcttgaatttttatactgtttcttgacaatttgcttggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTTCTTCCCAAAACGTTTCCCAG
                             tcttgac  putative branch site (score: 3)
              aatttttatactgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcatcatcctggatggagctgttatgctttttggcttgaatttttatactgtttcttgacaatttgcttggttgagcagTGGTCAGGTTGGAAAATGGATTGCTTTTATTGCTGTAGTGCTGCGCCTCTTCTTCCCAAAACGTTTCCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC