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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaccttctcaattttttcttccgtgcccttcattttcacctcaatttgagttcatatctcaaatctgaaaatctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCCCCCCAACC

Basic information

species Vitis vinifera
transcript Vv16s0013g02140.t01
intron # 1
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|349818608|gb|FQ403243.1|FQ403243
EST:     ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAG                         GTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
genomic: ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAGgtatgttacc ... atctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
EST: gi|349823346|gb|FQ402545.1|FQ402545
EST:     ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAG                         GTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
genomic: ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAGgtatgttacc ... atctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
EST: gi|349819443|gb|FQ412337.1|FQ412337
EST:     ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGCCTCTCCCAGAAAG                         GTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
genomic: ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAGgtatgttacc ... atctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
EST: gi|349811580|gb|FQ409576.1|FQ409576
EST:     ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAG                         GTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCCAAAACTACAGCC
genomic: ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAGgtatgttacc ... atctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
EST: gi|349810641|gb|FQ402884.1|FQ402884
EST:     ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAG                         GTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
genomic: ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAGgtatgttacc ... atctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
EST: gi|349819206|gb|FQ412100.1|FQ412100
EST:     ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAG                         GTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
genomic: ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAGgtatgttacc ... atctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
EST: gi|349822833|gb|FQ398220.1|FQ398220
EST:     ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAG                         GTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC
genomic: ACGTATAACCCATGGATCACAATGAGTCCTCTTCCGTCTCTCCCAGAAAGgtatgttacc ... atctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccttcattttcacctcaatttgagttcatatctcaaatctgaaaatctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCCCCCCAACC
                                              tctttgc  CT-rich tract
                                          aaaatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttaccttctcaattttttcttccgtgcccttcattttcacctcaatttgagttcatatctcaaatctgaaaatctttgcagGTCAGGTTTGCCCCGAAATCACCTCCTCGGAGAAAGCCTAAAACTACAGCCCCCCAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA