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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtttgctttttgttggtagggtgtaaaacaatgcatgtgattttcaaaattgttagcctgctctttttgtcatcatatctaggttaatgctaatcatactctgtaatgttcacttgcagTGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG

Basic information

species Vitis vinifera
transcript Vv09s0002g02500.t01
intron # 8
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|110708834|gb|EE086827.1|EE086827
EST:     ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAG                         TGGAAATCTCGATACTGTGAAAGAACT
genomic: ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAGgtagtttgct ... tcacttgcagTGAAAATCTCGATACTGTGAAGGAACT
EST: gi|110722963|gb|EE099729.1|EE099729
EST:     ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGGTCCAG                         TGAAAATCTCGATACTGTGAAAGAAACTTTTTGGT
genomic: ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAGgtagtttgct ... tcacttgcagTGAAAATCTCGATACTGTGAAGGAA-CTTTTTGGT
EST: gi|110699590|gb|EE076722.1|EE076722
EST:     ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAG                         TGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAGCTTGTTAGCAG
genomic: ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAGgtagtttgct ... tcacttgcagTGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG
EST: gi|110723331|gb|EE100521.1|EE100521
EST:     ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAG                         TGAAAATCTCGATACTGTGAAAGAACTTTTTGGTGTTGAACTTGTTAGC
genomic: ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAGgtagtttgct ... tcacttgcagTGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGC
EST: gi|71864100|gb|DT013155.1|DT013155
EST:     ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAG                         TGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG
genomic: ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAGgtagtttgct ... tcacttgcagTGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG
EST: gi|33404796|gb|CF210423.1|CF210423
EST:     ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAG                         TGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG
genomic: ACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAGgtagtttgct ... tcacttgcagTGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtcatcatatctaggttaatgctaatcatactctgtaatgttcacttgcagTGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG
                       tgctaat  putative branch site (score: 2)
                                            ttcactt  putative PPT
                          taatcata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtttgctttttgttggtagggtgtaaaacaatgcatgtgattttcaaaattgttagcctgctctttttgtcatcatatctaggttaatgctaatcatactctgtaatgttcacttgcagTGAAAATCTCGATACTGTGAAGGAACTTTTTGGTGTTGAACTTGTTAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA