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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTACCCATGTGAAAGGGAGGATCACTGGCCTCACACCTGGTCTTCATGGATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctctctaccctctaccctctactctctatctctatatataattgttgttgggcttagttttgaaggaaactttctataaatcctggcaaaggg...

Basic information

species Vitis vinifera
transcript Vv08s0007g07280.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g07280.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA16G27020.1 (Glycine max), 5'ss of exon 2
AGTACCCATGTGAAAGGGAGGATCACTGGCCTCACACCTGGTCTTCATGGATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctctctaccctctaccctctactctctatctctatatataattgttgttgggcttagttttgaaggaaactttctataaatcctggcaaaggg-------
|  |||||||||| ||||||  | || ||  |  | |  ||  ||||||| ||||||||||||||  | ||||| || |||||||||||||  |||||||||| |||||       |||| | ||  |      ||    ||  || |   || |     ||  | ||  |   | ||||      |   ||  ||||||       
ACCACCCATGTGACAGGGAGAGTGACAGGGTTGTCCCAAGGCTTTCATGGGTTCCATATTCATGCTTTTGGTGACACCACCAATGGCTGCAACTCCACTGgttctctctt------ctcttctcttcatgaatgattatcat-catcaaacttttacaatttcctcttacacctatcttttgtaggaaaatgaaaaagggagggttt
















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|349825158|gb|FQ415705.1|FQ415705
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|26263916|gb|CA814979.1|CA814979
EST:     ATTCCATATCCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|71870823|gb|DT019878.1|DT019878
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|110429247|gb|EC995737.1|EC995737
EST:     ATTCCATATTCATGCCCTGGGTGATACCACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|110392958|gb|EC957655.1|EC957655
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|32456166|gb|CD797340.1|CD797340
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|351040393|gb|FQ434526.1|FQ434526
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|71867553|gb|DT016608.1|DT016608
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|110389316|gb|EC954144.1|EC954144
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|110414987|gb|EC980855.1|EC980855
EST:     ATTCCATATTCATGCCCTGGGTGATACCACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
EST: gi|37184575|gb|CF603929.1|CF603929
EST:     ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTG                         GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG
genomic: ATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctc ... cttattttagGACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTACCCATGTGAAAGGGAGGATCACTGGCCTCACACCTGGTCTTCATGGATTCCATATTCATGCCCTGGGTGATACGACCAATGGCTGCATGTCCACTGgttttctctctctaccctctaccctctactctctatctctatatataattgttgttgggcttagttttgaaggaaactttctataaatcctggcaaaggg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcaaag