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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATTGAAGGAAATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatccaattccttttcagacggcatatgaaaaatcccctttgacgttcaacatctgatgattttaccttattgggttgagcttttccag

Basic information

species Vitis vinifera
transcript Vv18s0122g00190.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0122g00190.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA07G34680.2 (Glycine max), 5'ss of exon 2
ATATTGAAGGAAATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatcca-attccttttcagacggcatatgaaaaatcccctttgacgttcaacatct--gatgattttaccttattg-ggttgagcttttccag--
||| |||||||||||| ||||||||| || || ||||| |||||||| |||||||| ||| ||||||   | | | |       | ||   |||  | | |      || |    |||  | |   ||     | |   |  |   ||| |       |   
ATAGTGAAGGAAATTGAGCAAGACCTCTCCGGCTTCAAGTGTGGCCTAGCTCATCTCTTCTgtgagtatactacactatacactatacactatac-acatacataggttaattaacaaggttttaaattgcggtccgcaaccgcaattgcggccgcaaataa
















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|30329651|gb|CD012913.1|CD012913
EST:     CAAGACCTGTCAGGATTCAAATGGGGCCTTGCTCATTTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: CAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110387568|gb|EC952248.1|EC952248
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110398891|gb|EC965370.1|EC965370
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|351014365|gb|FQ437367.1|FQ437367
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110386869|gb|EC951501.1|EC951501
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|71857030|gb|DT006085.1|DT006085
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTTGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110732164|gb|EE107221.1|EE107221
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|26257553|gb|CA808616.1|CA808616
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|28959343|gb|CB339672.1|CB339672
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCCTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|26258319|gb|CA809382.1|CA809382
EST:     AATTGGGCAAGGCCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|254916144|gb|GR904002.1|GR904002
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|28959153|gb|CB339578.1|CB339578
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCCTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|30301103|gb|CB977897.1|CB977897
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCG                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|26257283|gb|CA808346.1|CA808346
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|71856841|gb|DT005896.1|DT005896
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTTGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110426779|gb|EC993200.1|EC993200
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110711159|gb|EE087374.1|EE087374
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110425239|gb|EC991621.1|EC991621
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|110379372|gb|EC944560.1|EC944560
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|30301035|gb|CB977829.1|CB977829
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCG                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|28960863|gb|CB340439.1|CB340439
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|28959155|gb|CB339579.1|CB339579
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|28959315|gb|CB339658.1|CB339658
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAATGAAAATTACGACTCGGACG
EST: gi|27584720|gb|CB007415.1|CB007415
EST:     AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCA                         TTCAGCACACAAGTGCTTCTCTGACTATAAATNGAAA-TTACGACTCGGAC
genomic: AATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatc ... gcttttccagTTCAGCACACAAGTGCTTCTCTGACTATAAAT-GAAAATTACGACTCGGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATTGAAGGAAATTGGGCAAGACCTGTCAGGATTCAAATGTGGCCTTGCTCATCTATTCAgtgagtgatccaattccttttcagacggcatatgaaaaatcccctttgacgttcaacatctgatgattttaccttattgggttgagcttttccag

- - - - - - - -  GCAAGA