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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcattttgtgtattcaaaacaaattttcttatacaatggaatgatctgagaagaaactgctggtcaagttgttaaattgtttgtctttttcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGTACAGTCGGTACTGATGGTGGAAATAGTAGTGGAGTTTCAAGGGCAATGG

Basic information

species Vitis vinifera
transcript Vv13s0073g00170.t01
intron # 9
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|46918058|gb|CN547387.1|CN547387
EST:     GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAG                         ATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
genomic: GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAGgtattctctg ... tcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
EST: gi|110363112|gb|EC926682.1|EC926682
EST:     GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAG                         ATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
genomic: GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAGgtattctctg ... tcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
EST: gi|110730993|gb|EE108709.1|EE108709
EST:     GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAG                         ATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
genomic: GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAGgtattctctg ... tcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
EST: gi|30136995|gb|CB922333.1|CB922333
EST:     GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAG                         ATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
genomic: GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAGgtattctctg ... tcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
EST: gi|30297777|gb|CB974571.1|CB974571
EST:     GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCGAAG                         ATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
genomic: GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAGgtattctctg ... tcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
EST: gi|110361233|gb|EC924691.1|EC924691
EST:     GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAG                         ATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT
genomic: GGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAGgtattctctg ... tcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgagaagaaactgctggtcaagttgttaaattgtttgtctttttcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGTACAGTCGGTACTGATGGTGGAAATAGTAGTGGAGTTTCAAGGGCAATGG
                                ttgtttgtctttttcc  CT-rich tract
                        ttgttaaattgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcattttgtgtattcaaaacaaattttcttatacaatggaatgatctgagaagaaactgctggtcaagttgttaaattgtttgtctttttcctctttagATTCTGCAGTGTCTCACCATTCAAGCGCTGACCTCCTCTGGTGGGGGTAGTACAGTCGGTACTGATGGTGGAAATAGTAGTGGAGTTTCAAGGGCAATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - -aatggaa
- - - - - - - - - - - - - - - - - - - - - - - - - gaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctggt