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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcatggttcaaattcgtttcaaatatgactattttcttacctcttcttcttcttcttcctttttattttttgttttctttttgctcttgattttcttcagATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGATAAGAGTGAAGAAGGATAATACTCTTTCAGACTCCAGCGATGTGATTCA

Basic information

species Vitis vinifera
transcript Vv14s0036g01130.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|33408179|gb|CF213806.1|CF213806
EST:     CTTTGCCTTATTGATGCTGGTTCTTGAATCTCATAGTTTAAGAACTACAG                         ATGCATCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGA
genomic: CTTTGCCTTATTGATGCTGGTTCTTGAGTCTCATAGTTTAAGAACTACAGgttttcttcc ... ttttcttcagATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGA
EST: gi|110380404|gb|EC945667.1|EC945667
EST:     CTTTGCCTTATTGATGCTGGTTCTTGAATCTCATAGTTTAAGAACTACAG                         ATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTGAGGA
genomic: CTTTGCCTTATTGATGCTGGTTCTTGAGTCTCATAGTTTAAGAACTACAGgttttcttcc ... ttttcttcagATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGA
EST: gi|294965129|gb|GW836960.1|GW836960
EST:     CTTTGCCTTATTGATGCTGGTTCTTGAGTCTCATAGTTTAAGAACTACAG                         ATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGA
genomic: CTTTGCCTTATTGATGCTGGTTCTTGAGTCTCATAGTTTAAGAACTACAGgttttcttcc ... ttttcttcagATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGA
EST: gi|71859428|gb|DT008483.1|DT008483
EST:     AGTTTAAGAACTACAG                         ATGCATCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGA
genomic: AGTTTAAGAACTACAGgttttcttcc ... ttttcttcagATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcttcttcttcctttttattttttgttttctttttgctcttgattttcttcagATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGATAAGAGTGAAGAAGGATAATACTCTTTCAGACTCCAGCGATGTGATTCA
                                       tcttgat  putative branch site (score: 4)
 ttcttcctttttattt  CT-rich tract
 ttcctttttatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcatggttcaaattcgtttcaaatatgactattttcttacctcttcttcttcttcttcctttttattttttgttttctttttgctcttgattttcttcagATGCTTCTTTTTCTGAGTCTCTATATGGCTTGCGGAGGAGAGCTGTAAGGATAAGAGTGAAGAAGGATAATACTCTTTCAGACTCCAGCGATGTGATTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
-catggtt
- - - - - - - - - -caaatat