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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTGGAAAATTGACGATATAAAGGGACTACTTGGGCGTTGTAATTTCAAAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaaccagtatacttgtttgttattttgtatctctcgtgtttattgaacattaatttagctattcttgttttcactgtgctgacaagggaactc...

Basic information

species Vitis vinifera
transcript Vv07s0031g01640.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g01640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA04G39670.1 (Glycine max), 5'ss of exon 5
GAATTGGAAAATTGACGATATAAAGGGACTACTTGGGCGTTGTAATTTCAAAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaaccagtata-cttgtttgttattttgtatctctcgtgt-ttattgaacattaatttagctattcttgttttcactgtgctgacaagggaactc
| | ||||  ||||| ||||| || || || ||||||||||||||||| ||||| |||||||||||  |||| ||||| || |||||||||||||||||||| | || ||    | |  ||| ||| | | ||   || | |   |  ||  ||| ||  |    |   |   |     | | |    ||||          
GGACTGGAGGATTGATGATATTAAAGGGCTTCTTGGGCGTTGTAATTTTAAAGCTGATATGCTTGACCGAAAAGTTTCACTATTGAGTGGTGGTGAGAAGgtaaattcaagatttgtgtcttctttttcagttgacatttatttagcatttgtgagcaacataacattcaaattccaacttaattctatgactgaatggt--

upper sequence: Vv07s0031g01640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA06G15200.1 (Glycine max), 5'ss of exon 5
GAATTGGAAAATTGACGATATAAAGGGACTACTTGGGCGTTGTAATTTCAAAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaaccagtata-cttgtttgttattttgtatctctcgtgtttattgaacattaatttagctattcttgttttcactgtgctgacaagggaactc--
| | ||||  ||||| ||||| || || || ||||||||||||||||| ||||| |||||||||||  |||| ||||| || |||||||| ||||||||||| | || ||    | |  ||| ||| | | ||    | | |   |  | |   |  | |  ||  ||| |      || | | |  |||| |      ||  
GGACTGGAGGATTGATGATATTAAAGGGCTCCTTGGGCGTTGTAATTTTAAAGCTGATATGCTTGACCGAAAAGTTTCACTATTGAGTGGCGGTGAGAAGgtaaattcaagatttgtgtcttctttttcagttgacgtttatttagcatttgtgatgtaacatt--ctaattccaacttaattcta-tgactaaatggttcac

upper sequence: Vv07s0031g01640.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT5G09930.1 (Arabidopsis thaliana), 5'ss of exon 5
GAATTGGAAAATTGACGATATAAAGGGACTACTTGGGCGTTGTAATTTCAAAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaaccagtatacttgtttgttattttgtatctctcgtgtttattgaacattaatttagctattcttgttttcactgtgctgacaagggaactc
  |||||| |||||| |||||||| |  || ||||| || || || |||||||| || ||| | ||||||||||| || ||||||||||||||||||||||| |  |||     |||  || |     || |  ||    || ||||  |    |||    ||   | ||   || ||                      
AGATTGGAGAATTGATGATATAAAAGCTCTTCTTGGTCGGTGCAACTTCAAAGCTGACATGTTGGATAGAAAGGTCTCTCTTTTGAGTGGTGGTGAGAAGgtaacataatgtc-tatcattatcctcaatataatactcatcatgttctt----catcgccttttttcttgcggtcttag--------------------

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|110391761|gb|EC956761.1|EC956761
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|30323437|gb|CD006699.1|CD006699
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|352772399|gb|FQ469924.1|FQ469924
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|37189985|gb|CF609334.1|CF609334
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTG
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTG
EST: gi|30301899|gb|CB978693.1|CB978693
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|32268733|gb|CD717892.1|CD717892
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|32248178|gb|CD713997.1|CD713997
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|30135054|gb|CB920392.1|CB920392
EST:     GTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: GTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|30322545|gb|CD005807.1|CD005807
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
EST: gi|32269321|gb|CD718480.1|CD718480
EST:     AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAG                         GCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA
genomic: AAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaa ... ttgagttcagGCACGTCTTGCCTTCTGCAAGTTCATGGTAAAACCTTCAACTTTGCTAGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATTGGAAAATTGACGATATAAAGGGACTACTTGGGCGTTGTAATTTCAAAGCCGATATGCTTGATAGAAAGGTTTCCCTTTTGAGTGGTGGTGAGAAGgtgagttaaaccagtatacttgtttgttattttgtatctctcgtgtttattgaacattaatttagctattcttgttttcactgtgctgacaagggaactc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagggaa