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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaatcttaactcagatagttattagcatagattacatacttccaaactgatgattccatggtttcaatgatcag

Basic information

species Vitis vinifera
transcript Vv14s0171g00490.t01
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GRMZM2G130230_T02 (Zea mays), 5'ss of exon 15
GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaatcttaactcagatagttattagcatagattacatacttccaaactgatgattccatggtttcaatgatcag-------------------------------------------------
 ||| |||||||||||||||| |||||||||||||||||| |  ||||        |   | |    ||| || |   |     ||  || |||    |   |     |  |  |||   ||                                                      
AATAAGAGGTGATCAGCAGCACTTTGTTCGCAGAGATGAGCTACAGgttcgtttcgtgccaccctgcatatttgtgccctcttgttggatcctttatcagctagagccctttaatttatctgcaagaactctttcatttctgcttccctctaacgctgcacgtttcgctttttcag

upper sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA19G24250.1 (Glycine max), 5'ss of exon 15
GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaatcttaactcagatagttattagcatagattacatacttccaaact-gatgattccatggtt--tcaatgatcag
 ||   |||||||||||||||||||||||||||||||||||||||||||    || |     ||        ||||   | ||  |      |  ||||||  |||| |||||  ||  |   | |||||
AATTAAAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtaagatcattacatgcttgatagagtattgcaagagcgtgtcacttcacaaacttaatgactccattttttgtttcttatcag

upper sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA16G06850.1 (Glycine max), 5'ss of exon 15
GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaatcttaactcagatagttattagcatagattacatacttc-caaactgatga--ttccatggtttcaatgatcag
 ||  ||||||||||||| ||||||||||||||||||||||||||||||    || |     ||  |     ||||   | ||  | | | |||| |||||| ||    | || |  |||   | |||||
AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAGgtaagatcattacatgcttggtagagtattgcaagagggt-cttgcttcacaaacttattgactccctttttttttcttatcag

upper sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA19G22690.1 (Glycine max), 5'ss of exon 15
GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaat-cttaactcagatagttattagcatagattacatacttccaaactgatgattccatggtttcaatgatcag
 ||  |||||||||| || ||||||||||||||||||||||||||||||    || | | |   | |||   ||   ||  |   |||  |||  |   | ||||  |    || ||   || |    
AATTAGAGGTGATCAACAACATTTTGTTCGCAGAGATGAGTTGAAGgtaatatcattacatgcgtgagactattgcaagtgttt-ttatttacaacttcagtgattgtattttgtttctcatcag---

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|352763752|gb|FQ473455.1|FQ473455
EST:     GACACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110716825|gb|EE092144.1|EE092144
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|351015046|gb|FQ444335.1|FQ444335
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352773448|gb|FQ472230.1|FQ472230
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110365367|gb|EC928242.1|EC928242
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110715492|gb|EE093605.1|EE093605
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|33405782|gb|CF211409.1|CF211409
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110361886|gb|EC925389.1|EC925389
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352777103|gb|FQ474410.1|FQ474410
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|30329436|gb|CD012698.1|CD012698
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110364587|gb|EC927954.1|EC927954
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110384476|gb|EC948916.1|EC948916
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110696408|gb|EE072500.1|EE072500
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGNGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352763934|gb|FQ465384.1|FQ465384
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352777620|gb|FQ466673.1|FQ466673
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352781379|gb|FQ468223.1|FQ468223
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|71890077|gb|DT039132.1|DT039132
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352781474|gb|FQ468318.1|FQ468318
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110416304|gb|EC982275.1|EC982275
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110367670|gb|EC931616.1|EC931616
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352778466|gb|FQ465776.1|FQ465776
EST:     CGATACGAGGTGATCAGCTGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACNNNNNNNGCACAGAATTGACAATGGAGAA
genomic: CGATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110373098|gb|EC937308.1|EC937308
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaatcttaactcagatagttattagcatagattacatacttccaaactgatgattccatggtttcaatgatcag

- - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - TTGAAG