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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGAACAGGGAATTAAGGAGATACAAGATCAAATTGGACAGGCAAATGAGATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttcataatactcactaaaaggattatttttctttctttccaactatggagctttctgcttttgctttatcttaaaggtaatttgttttattataacag

Basic information

species Vitis vinifera
transcript Vv14s0068g00800.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g00800.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA16G05040.1 (Glycine max), 5'ss of exon 5
AGAGAACAGGGAATTAAGGAGATACAAGATCAAATTGGACAGGCAAATGAGATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttcataatactcactaaaaggattatttttctttctttccaactatggagctttctgcttttgctttatcttaaaggtaatttgttttattataacag
||||||||||||||||  ||| || |||| ||||||||||| |||||||| ||||| | ||||||||||||||| |||||||| |||||||| || |||||||| |               || |  |  ||||| ||  |||        |  | | ||  | | ||   ||  || | |  |  | ||  | ||| | ||||
AGAGAACAGGGAATTAGAGAGGTAGAAGAGCAAATTGGACAAGCAAATGAAATATTCAAGGACCTAGCTGTTCTGGTTCATGATCAGGGTGTTGTTATTGgtaaat---------------aagattaccattttactagcttcttgttgctacaacatttagttattctcttcgctcatatttc-tatgcatcattctgacag
















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|110713687|gb|EE089836.1|EE089836
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCTGCAACA-CACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|351054689|gb|FQ462719.1|FQ462719
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCCAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|110371177|gb|EC934993.1|EC934993
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|30252786|gb|CB970337.1|CB970337
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|110405448|gb|EC970989.1|EC970989
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|110406346|gb|EC971916.1|EC971916
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|34415325|gb|CF414079.1|CF414079
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|110403781|gb|EC969537.1|EC969537
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCTGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|351034888|gb|FQ458245.1|FQ458245
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACGTTCACTCAAATATCGAGGCCTCCTCTG
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTG
EST: gi|30126331|gb|CB911670.1|CB911670
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCTGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|30131604|gb|CB916943.1|CB916943
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCTGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|34542538|gb|CF510770.1|CF510770
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCTGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|110700860|gb|EE077882.1|EE077882
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCTGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|110423298|gb|EC989640.1|EC989640
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
EST: gi|351031591|gb|FQ459848.1|FQ459848
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCC
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCC
EST: gi|349824290|gb|FQ417701.1|FQ417701
EST:     GATATTTAGGGACCTAGCTGTTCTAATTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGGCCTCCTCTGCCGCAACAACACAAGCT
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGG-CCTCCTCTGCCGCAACAACACAAGCT
EST: gi|351027941|gb|FQ425842.1|FQ425842
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCC
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCC
EST: gi|34542448|gb|CF510680.1|CF510680
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGC-G-ATCGAAACACAAGC
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAAC-AA-CACAAGC
EST: gi|71870813|gb|DT019868.1|DT019868
EST:     GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTG                         ATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA
genomic: GATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttca ... attataacagATGACATTCACTCAAATATCGAGGCCTCCTCTGCCGCAACAACACAAGCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGAACAGGGAATTAAGGAGATACAAGATCAAATTGGACAGGCAAATGAGATATTTAGGGACCTAGCTGTTCTAGTTCATGAGCAGGGTGTGGTCATTGgtaagtttcataatactcactaaaaggattatttttctttctttccaactatggagctttctgcttttgctttatcttaaaggtaatttgttttattataacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG