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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTGGCTTTGGCGAATATGGAAGAAGTGTTAACGGCGGCAACGTTGGCGCAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaactatatgagagtgtgatgtgatgaaattttaagggtgtctgagggaatattcttcatgcaataatgacttgtaaatagaccttaagaataa...

Basic information

species Vitis vinifera
transcript Vv00s1455g00010.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s1455g00010.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G15710.2 (Glycine max), 5'ss of exon 2
ATGTGGCTTTGGCGAATATGGAAGAAGTGTTAACGGCGGCAACGTTGGCGCAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaactat--------atgagagtgtgatgtgatgaaattttaagggtgtctgagggaatattcttcatgcaataatgacttgtaaatagaccttaagaataa
||||||||||||||||||||||| | ||| || | || | || | | ||| |||||||||| |||||||| | ||| || ||||||||||||||||||||| | || | | | | || || || | | | | || || || | || | | ||| || | ||
TTGTGGCTTTGGCGAATATGGAAGGACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGTTGTGGTGCATGCTATCAGgtaattttctttcccttttcaataatcattttttcctattgtccttaaaaaaaaattaaaatatttttttttatct--tcataaatataaaaatgatcaaaa------

upper sequence: Vv00s1455g00010.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA05G05430.1 (Glycine max), 5'ss of exon 3
ATGTGGCTTTGGCGAATATGGAAGAAGTGTTAACGGCGGCAACGTTGGCGCAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaat-----taaactatatgagagt--gtgatgtgatgaaattttaagggtgtctgagggaatattcttcatgcaataatg-acttgt-------aaatagaccttaagaataa---------------------
||||||||||||||||||||||||| ||| || | || | || | | ||| |||||||||| |||||||| | |||||| |||||||||||||| ||| | | || | | | | | | | | ||| | | || | | || || || |||||| ||| | | | | |||
TTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGCTGTGGTGCATGCTATCAAgtacttttctttctcttcttaataatcaatatttctactagtccttagtaaaagaaaaagcttcatcatccttgaaacaaaatacttgtttatttgaaaaaaatttggcaagtaataaacgacgatgatgattcag
















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|110357136|gb|EC920473.1|EC920473
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|32248045|gb|CD713864.1|CD713864
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|110390335|gb|EC955237.1|EC955237
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|30328122|gb|CD011384.1|CD011384
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|32265245|gb|CD716834.1|CD716834
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|32271290|gb|CD720449.1|CD720449
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|32247387|gb|CD713206.1|CD713206
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|32249570|gb|CD715389.1|CD715389
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
EST: gi|110357223|gb|EC920610.1|EC920610
EST:     CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAG                         GTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG
genomic: CAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaac ... gataattcagGTTAGGTGCAAGGTACCAAACCTTTGTGCAGATAATGGGATGAAGGTAGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTGGCTTTGGCGAATATGGAAGAAGTGTTAACGGCGGCAACGTTGGCGCAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATGCTATCAGgtaattaaactatatgagagtgtgatgtgatgaaattttaagggtgtctgagggaatattcttcatgcaataatgacttgtaaatagaccttaagaataa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaata