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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGACTATGCTTTTGAATTCATCATCAACAATGGTGGCATTGATAGCGAAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgccttcaccaaattttcttgaagagtgaaaaattttcaagttgcctgaaagggtgttgtgttcatggacatgaccatgaggttgtagtataatcctaattcactgtaatatatttccttctttcag

Basic information

species Vitis vinifera
transcript Vv03s0180g00010.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0180g00010.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os04g55650.1 (Oryza sativa), 5'ss of exon 2
CATGGACTATGCTTTTGAATTCATCATCAACAATGGTGGCATTGATAGCGAAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgccttcaccaa-attttcttgaagagtgaaaaattttcaagttgcctgaaagggtgttgtgttcatggacatgaccatgaggttgtagtataatcctaattcactgtaatatatttccttctttcag
 ||||||||||| ||||| |||||||||||||||||||| || || | ||| || || |||||||||   |     ||   |   |||||    ||| |||| | |  | ||  |     |  ||||     | |   | |  ||   |   ||| | | | |||   |||         | ||    |   ||                                       
GATGGACTATGCATTTGATTTCATCATCAACAATGGTGGAATCGACACCGAGGATGACTACCCTTACAAAGGCAAGGACGAACGGTGTGACGTAAACAGGgtatctttcgtcttctttgctcccttggtttttcaggtagtagcataat-tttgatatgctattgc--tcacttgtgctgctatac--tcacag---------------------------------------
















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|156737324|gb|EV241445.1|EV241445
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110723541|gb|EE100971.1|EE100971
EST:     AGAAGATTACCCTTACCGGGCCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGGTGTGGCCATTGATGG
genomic: AGAAGATTACCCTTACCGGGC-GGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGG
EST: gi|110357084|gb|EC920382.1|EC920382
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110356923|gb|EC920101.1|EC920101
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110388288|gb|EC953023.1|EC953023
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110359126|gb|EC920097.1|EC920097
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110719230|gb|EE096967.1|EE096967
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAGC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110720888|gb|EE097202.1|EE097202
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110720629|gb|EE096718.1|EE096718
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110718465|gb|EE095330.1|EE095330
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110356759|gb|EC919821.1|EC919821
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110722640|gb|EE099045.1|EE099045
EST:     AAGAAGATTACCCTTAACGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAA-TGCTCGGGTTGTGTC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTC
EST: gi|110359044|gb|EC919877.1|EC919877
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGAT
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGAT
EST: gi|110391796|gb|EC956797.1|EC956797
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATGGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110698843|gb|EE076805.1|EE076805
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGAATATGAAGATGTTCCACAAA-C
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
EST: gi|110359109|gb|EC920049.1|EC920049
EST:     AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGG                         AAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC
genomic: AAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgcct ... cttctttcagAAAAATGCTCGGGTTGTGTCCATTGATGGATATGAAGATGTTCCACAAAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGGACTATGCTTTTGAATTCATCATCAACAATGGTGGCATTGATAGCGAAGAAGATTACCCTTACCGGGCGGCTGATACAACCTGTGATCCTAACCGGgtttgtgccttcaccaaattttcttgaagagtgaaaaattttcaagttgcctgaaagggtgttgtgttcatggacatgaccatgaggttgtagtataatcctaattcactgtaatatatttccttctttcag

- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT