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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagcatttcatatttatctcatgagtttgggaagaagtccttttcctcaatcacgttggtttggttgtgttgcag

Basic information

species Vitis vinifera
transcript Vv05s0049g01770.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01770.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G27570.1 (Glycine max), 5'ss of exon 4
ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagcatttcatatttatctcatgagtttgggaagaagtccttttcctcaatcacgttggtttggttgtgttgcag
||||||||||||||||||||||||||  |||||||||| |  || ||||| || |||| ||||||||||||       | | |  | |    ||| |   | ||    |   | |     ||         |   || || |||||
ATGAGCATTGGAAGGAAGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgtgctaaaaaattttgattgactaatgtaatgcataaatatatatgattcttacaactctatt-tgctgcag

upper sequence: Vv05s0049g01770.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G21510.2 (Glycine max), 5'ss of exon 4
ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagcatttcatatttatctcatgagtttgggaagaagtccttttcctcaatcacgttggtttggttgtgttgcag
||||||||||||||||||||||||||  |||| ||||| |  || ||||| || |||| ||||||||||||       |||||  | |    ||| |   | ||    |   | ||    ||  | |   | |   ||||||||||
ATGAGCATTGGAAGGAAGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttatgctcataagttttgattgactagcgtaatgcataaatatctatgatt-cttacatctctatgtgttgcag
















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|349815714|gb|FQ400870.1|FQ400870
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110381761|gb|EC935318.1|EC935318
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110685840|gb|EE062914.1|EE062914
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|71866301|gb|DT015356.1|DT015356
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|30133607|gb|CB918946.1|CB918946
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAG
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAG
EST: gi|77584480|gb|DV221309.1|DV221309
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|77584572|gb|DV221367.1|DV221367
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110686380|gb|EE063948.1|EE063948
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|30129212|gb|CB914551.1|CB914551
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|77580010|gb|DV218885.1|DV218885
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|29782677|gb|CB348195.2|CB348195
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATCCAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110715667|gb|EE093980.1|EE093980
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110427971|gb|EC994428.1|EC994428
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|30135899|gb|CB921237.1|CB921237
EST:     AGTGGAAGGAGGTCATTGATGTCACCGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGGAGGGANAGATCAGTCANAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110724989|gb|EE101297.1|EE101297
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110732987|gb|EE108752.1|EE108752
EST:     AGTGGAAGGANGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|351040235|gb|FQ425321.1|FQ425321
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|30130346|gb|CB915685.1|CB915685
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGANAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110731346|gb|EE105675.1|EE105675
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|30130329|gb|CB915668.1|CB915668
EST:     AGTGGAAGGAGGTCATTGATGTCACCGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGGAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|351046061|gb|FQ441444.1|FQ441444
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|351015262|gb|FQ445546.1|FQ445546
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|30131970|gb|CB917309.1|CB917309
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAG
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAG
EST: gi|71886452|gb|DT035507.1|DT035507
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110697840|gb|EE075280.1|EE075280
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110721728|gb|EE097336.1|EE097336
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110731029|gb|EE108785.1|EE108785
EST:     AGTGGAAGGANGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         TATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|30132754|gb|CB918093.1|CB918093
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|22013368|gb|BQ798402.1|BQ798402
EST:     AGTGGAAGGAGGTCATTGATGTCACCGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGGAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|351027640|gb|FQ446807.1|FQ446807
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110375910|gb|EC940937.1|EC940937
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|71886070|gb|DT035125.1|DT035125
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
EST: gi|110703148|gb|EE079739.1|EE079739
EST:     AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT                         GATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA
genomic: AGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagca ... tgtgttgcagGATGATTCCAGAAGGGAAAGATCAGTCAAAGTTCGATACAACGTGTGAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCATgtaaatagcatttcatatttatctcatgagtttgggaagaagtccttttcctcaatcacgttggtttggttgtgttgcag

- - - - - - - - AGTGGA
- - - - - - - - - TGGAAG
- - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - AGATCA