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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACATAGAGCTGCTGGTCCAGAGCTTGTAGCAGCTTGCTATAAGGTCCCAGAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttcttatacgttggttcattatatagattattttcctcacaatgtactgatgttctaataatttgcag

Basic information

species Vitis vinifera
transcript Vv13s0067g02950.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g02950.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT2G40600.1 (Arabidopsis thaliana), 5'ss of exon 3
TACATAGAGCTGCTGGTCCAGAGCTTGTAGCAGCTTGCTATAAGGTCCCAGAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtagg-------ttcttatacgttggttcattatatagattattttcctcacaatgtactgatgtt--ctaataatttgcag----------------------
|||||||||||||||| ||| | ||   ||| || |||||| |||| || |||||||| || ||| | || || || |||||||||||||||||||| | ||  |       || || ||  | |  |    || ||||||    |  |   ||  |  |  ||||   | ||      |||                      
TACATAGAGCTGCTGGGCCACAACTCAGAGCTGCATGCTATGAGGTTCCTGAAGTTCGTCCTGGAGTCCGTTGTCCAACTGGAGAAGCAAGAATTACTCCgtgagattaccctttttttaactcgtgtataaatgtagattgaggtagtttgaaattggtattgttgagtgatggaaaccagttggattgaaaaattggaacag
















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|351034809|gb|FQ458166.1|FQ458166
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTACAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|71876452|gb|DT025507.1|DT025507
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|351014566|gb|FQ437568.1|FQ437568
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|349812975|gb|FQ411215.1|FQ411215
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|34550530|gb|CF518748.1|CF518748
EST:     GAATTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|110690444|gb|EE067550.1|EE067550
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|351014429|gb|FQ437431.1|FQ437431
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|34550147|gb|CF518365.1|CF518365
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATG-ATCTTCACACTGTTGGGCCAATTT
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAA-TTCACACTGTTGGGCCAATTT
EST: gi|349815351|gb|FQ400506.1|FQ400506
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
EST: gi|71858450|gb|DT007505.1|DT007505
EST:     GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCA                         AGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA
genomic: GAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttctt ... taatttgcagAGGTTTTAAATTGCCTGCAGCTCATGTAATTCACACTGTTGGGCCAATTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACATAGAGCTGCTGGTCCAGAGCTTGTAGCAGCTTGCTATAAGGTCCCAGAAGTTCGACCCGGAATTCGCTGCCCTACTGGAGAAGCAAGAATTACCCAgtaggttcttatacgttggttcattatatagattattttcctcacaatgtactgatgttctaataatttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA