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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAGCATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAGgtaactgcagctctgaacctctttcagttttagtaaatatgctctgatatgggtgtgaagcatacatatcttattaaaaagaattttccgtcttgatttc...

Basic information

species Vitis vinifera
transcript Vv13s0064g00180.t01
intron # 24
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0064g00180.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: GLYMA20G34020.1 (Glycine max), 5'ss of exon 25
ATGAGCATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAGgtaactgcagctctgaacctctttcagt-tttagtaaatatgctctgatatgggtgtgaagcatacatatc-ttattaaaaagaattttccgtcttgatttc
|||| | |||||| || |||||||||||||| |||||||||||||| || ||||||| ||| | | ||||||||  ||    | ||||||| ||||||| | || |||        ||    |||  |||||  |    | |    ||    | |  
ATGAACGTGATATGGACTTTGATCAATTTGGAATACTTATAAAAGTTAAATTCAGgtgacttctgttctgaaccagttcttttgtttagtacatatgctttcatgtggtcactgttcaatgttatggttatttgatgcgactcctggttaccagt--
















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|351031040|gb|FQ444867.1|FQ444867
EST:     CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAG                         GCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTGGAGGG
genomic: CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAGgtaactgcag ... tgatcatcagGCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTGGAGGG
EST: gi|351032202|gb|FQ460459.1|FQ460459
EST:     CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAG                         GCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTGGAGGG
genomic: CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAGgtaactgcag ... tgatcatcagGCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTGGAGGG
EST: gi|351031564|gb|FQ459821.1|FQ459821
EST:     CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAG                         GCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTNNNNNN
genomic: CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAGgtaactgcag ... tgatcatcagGCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTGGAGGG
EST: gi|351037685|gb|FQ464126.1|FQ464126
EST:     CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAG                         GCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTNNNNNN
genomic: CATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAGgtaactgcag ... tgatcatcagGCAAGCAGGAGAACTTCAAGTTCTTAGCGCCCACCATCAATCTGGAGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGAGCATGATATCGATTTTGATCAATTTGGGATACTTATAAAAGTCAAGTTCAGgtaactgcagctctgaacctctttcagttttagtaaatatgctctgatatgggtgtgaagcatacatatcttattaaaaagaattttccgtcttgatttc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa