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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCCCATAAATGTTAAAATTGCTGAGTTGAGAGAGGCACTGGAATCTGTTACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttttgcttttctttcaagtggtgatagtgaattaatgtgatcaaaccatttttggatgttgtttctagcaattatttgatctcttccattaac...

Basic information

species Vitis vinifera
transcript Vv05s0020g04150.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g04150.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT3G22845.1 (Arabidopsis thaliana), 5'ss of exon 3
GACCCCATAAATGTTAAAATTGCTGAGTTGAGAGAGGCACTGGAATCTGTTACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttttgcttt--tctttcaagtggtgatagtgaattaatgtgatcaaaccatttttggatgttgtttctagcaattatttgatctcttccattaac--------------------------------------------------------------
|||||  |||||||||| || |||||||||||||||||  |||||||||||   || ||||||||||||||||||||||| || |||||||| ||||| ||||||  || | | ||  |||| ||||      |       | |   ||  ||  | |  || ||||  || |    ||||    |||  | ||  |   ||                                                              
GACCCGGTAAATGTTAAGATAGCTGAGTTGAGAGAGGCTTTGGAATCTGTTGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATAgtaagttttctccattcgtcttacaagcctcattcccttgattacccgagtaa--cttgcttagatgcagtat--gacaatataatgagtttttagacagacatcattgaatggcgaaagatgcaacctttatacgatctaacattgttctgtgtttggtgcag
















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|51051985|gb|CO819332.1|CO819332
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|32244957|gb|CD710776.1|CD710776
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|30304834|gb|CB981628.1|CB981628
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|351041440|gb|FQ447567.1|FQ447567
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACCAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|22009989|gb|BQ795023.1|BQ795023
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|18458532|gb|BM436810.1|BM436810
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATNTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110391808|gb|EC956810.1|EC956810
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110689594|gb|EE065965.1|EE065965
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|30329489|gb|CD012751.1|CD012751
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|351045647|gb|FQ440832.1|FQ440832
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110715167|gb|EE092904.1|EE092904
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|71879666|gb|DT028721.1|DT028721
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|87585357|gb|DY474109.1|DY474109
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGT
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGT
EST: gi|110707896|gb|EE084817.1|EE084817
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110386948|gb|EC951583.1|EC951583
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|51051053|gb|CO818862.1|CO818862
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|71878189|gb|DT027244.1|DT027244
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|32245175|gb|CD710994.1|CD710994
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|27582549|gb|CB005244.1|CB005244
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110373933|gb|EC938946.1|EC938946
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110367618|gb|EC931562.1|EC931562
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|46917814|gb|CN547143.1|CN547143
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110715764|gb|EE094189.1|EE094189
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|71877713|gb|DT026768.1|DT026768
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|71878721|gb|DT027776.1|DT027776
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110427983|gb|EC994440.1|EC994440
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC
EST: gi|110701935|gb|EE080075.1|EE080075
EST:     TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACA                         CAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACCCTGGGTGAGTACC
genomic: TACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttt ... gttgctacagCAAATGAAAGCACAAGAAAGCGTGTCATATTTTACACGCTGGGTGAGTACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACCCCATAAATGTTAAAATTGCTGAGTTGAGAGAGGCACTGGAATCTGTTACAGCAGAGCAGAAGTATTTGAAAGCTCGAGATACTCGTCATCGTCACAgtaagccttttgcttttctttcaagtggtgatagtgaattaatgtgatcaaaccatttttggatgttgtttctagcaattatttgatctcttccattaac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcttcc