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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acattacccgtccaagttgcagccctagtttcactgctctttctctgcttttttccatttgacaaagcctgaatattctcattcttccattggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAGAAGATAGATTGTGCCTACCCTTGTGACTCTACTTGCCATAACCGGGTTT

Basic information

species Vitis vinifera
transcript Vv02s0087g00400.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0087g00400.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G17190.3 (Glycine max), 3'ss of exon 13
acattacccgtccaagttgcagccctagtttcactgct-------ctttctctgcttttttccatttgacaaagcctgaatattctcattcttccattggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAGAAGATAGATTGTGCCTACCCTTGTGACTCTACTTGCCATAACCGGGTTT
  ||         ||   |  |    ||| ||| | ||        | |  ||   |||| |  | |  |||   || |     ||  ||     |      ||||| |||||||||||||||| || || ||||  ||||| || || || ||||   ||||||||||||||||||||||  || ||||||||||||| ||  |||
--atgtttaaaataaaggggtgtttaagtctcattactggtaggtttattactatcttttcctttatatcaagagctaa-----cttgtttgcataacattgtgcagTCAATTGCAAAGGCAGTGGGTGATTGGTTTTATGATCGAAGGCCCTTCCGTGAGATAGATTGTGCCTACCCTTGCAACCCTACTTGCCATAATCGTATTT

upper sequence: Vv02s0087g00400.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT4G19420.1 (Arabidopsis thaliana), 3'ss of exon 12
-----acattacccgtccaagttgcagccctagtttcactgctctttctctgcttttttccatttgacaaagcctgaatattctcattcttccattggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAGAAGATAGATTGTGCCTACCCTTGTGACTCTACTTGCCATAACCGGGTTT
     | |  |  |   ||   | ||        |  |      | ||  |    |      |           | |  ||||    | |    ||    |||||||||| ||||| || || ||||| |||   |||||| | |     || ||||||||||||||| | ||||||||| || ||||||||||  || ||||||
gtacaaaaaaaagcaaacattctccaaattcttgtcaaacaaaatgtcattagaatcaatgttacattgtgttttcatgattcattatttcttcttaatttgcagACAATAGCAAAAGCTGTTGGAGATTGGGTTTATGACAGAACATTGTTTCAGAAGATAGATTGTCCTTACCCTTGTAACCCTACTTGCCACCACAGGGTTT
















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|110376481|gb|EC941546.1|EC941546
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110715153|gb|EE092874.1|EE092874
EST:     AAATGCANGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAAGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110714669|gb|EE091838.1|EE091838
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|30128817|gb|CB914156.1|CB914156
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110418349|gb|EC984496.1|EC984496
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110377757|gb|EC942842.1|EC942842
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|30251405|gb|CB969138.1|CB969138
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110391590|gb|EC956576.1|EC956576
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|45770699|gb|CN006551.1|CN006551
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110383471|gb|EC947846.1|EC947846
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|45770703|gb|CN006555.1|CN006555
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110703741|gb|EE080850.1|EE080850
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|45770871|gb|CN006723.1|CN006723
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110423673|gb|EC990024.1|EC990024
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110386492|gb|EC951090.1|EC951090
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110360568|gb|EC923781.1|EC923781
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110364047|gb|EC927689.1|EC927689
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110361656|gb|EC925145.1|EC925145
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110382623|gb|EC946935.1|EC946935
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110375774|gb|EC940791.1|EC940791
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110362506|gb|EC926047.1|EC926047
EST:     AAATGCAGGAAACATGGGTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110396078|gb|EC961753.1|EC961753
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110692352|gb|EE071502.1|EE071502
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110369475|gb|EC933635.1|EC933635
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110715685|gb|EE094014.1|EE094014
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110384265|gb|EC948691.1|EC948691
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|45770999|gb|CN006851.1|CN006851
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110362390|gb|EC925920.1|EC925920
EST:     AAATGCAGGAAACATGGGTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|45771174|gb|CN007026.1|CN007026
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|33410372|gb|CF215999.1|CF215999
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|22012950|gb|BQ797984.1|BQ797984
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|351029203|gb|FQ435403.1|FQ435403
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
EST: gi|110693635|gb|EE070040.1|EE070040
EST:     AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACA                         ACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG
genomic: AAATGCAGGAAACATGGCTGAGGGACGACTCCCCAGTACTTGGAAAAACAgtaagccttc ... tggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttttttccatttgacaaagcctgaatattctcattcttccattggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAGAAGATAGATTGTGCCTACCCTTGTGACTCTACTTGCCATAACCGGGTTT
           atttgac  putative branch site (score: 4)
                              ttctcattcttccatt  putative PPT
                        tgaatatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acattacccgtccaagttgcagccctagtttcactgctctttctctgcttttttccatttgacaaagcctgaatattctcattcttccattggcatgcagACAATTGCAAAGGCAGTAGGAGACTGGTACTATGACCGGAGTCCATTCCAGAAGATAGATTGTGCCTACCCTTGTGACTCTACTTGCCATAACCGGGTTT

- - - -ccgtcca
- - - - - - - - - -cagccct
- - - - - - - - - - - - - - - tcactgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttccat