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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcattcatgccatgtcatatttaaggtgaccaatagaaagcagaaggaaaatgccttaatatgtcaagcaattaaatttgatacatgtattgtaatttttgtttattttggcattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTTGATTTTGGGAAAAAGAAATCATTTCCATTCCGTGACCAG

Basic information

species Glycine max
transcript GLYMA03G38930.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G38930.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G09340.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------gtaagtcattcatgccatgtcatatttaaggtgaccaatagaaagcagaaggaaaatgccttaatatgtcaagcaattaaatttgatacatgtattgtaatttttgtttattttggcattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTTGATTTTGGGAAAAAGAAATCATTTCCATTCCGTGACCAG
                          ||       |||  |||  || | |  |      ||    |    | |   | ||  |   | |||     |||  ||    |   | | ||  |     | ||  | | ||      | |  ||||| |||||||| || |||||||||||  |||| |||||||| ||||| || || |||||||| |||||  |||| || |||||||| |||
gtacattcttttctattggctttattgttgtctcatcaatccaaatcgtttcaagtacatcctggtgtggtccgtttgtaatagatatcatactctgagctttttggatcattgcttgagtaaacttattcatgttttcaactctctctcagGCCGGTGGGTTTCCGGAGCCAGAGATTGTTCATTACAACCCGAAAGAGTTCGACTTTGGGAAGAAGAAGGCATTCCCTTTCCGTGATCAG

upper sequence: GLYMA03G38930.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0060g00820.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtcattcatgccatgtcatatttaaggtgaccaatagaaagcagaaggaaaatgccttaatatgtcaagcaattaaatttgatacatgtattgtaatttttgtttattttg-gcattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTTGATTTTGGGAAAAAGAAATCATTTCCATTCCGTGACCAG
    || |  |     || |  | |  ||  ||   || | |||| |   | ||| |     | | | | ||    ||  | ||  ||    |||  | |    ||||| ||||| |  | ||  ||| ||  ||||| || ||||| |||||  ||||||||||||| || || || |||||||| ||||||||| |||| |||||||||||||||
----gtaaccctgaaaatatgct-tacaaaatggg-aaaaaaaagaaaccgaaaactaaagaactttatgaaatggttggagttc-tatgattatcttcacg--tgtttgttttgtgtgtcttatagGGTGCCGGGTTTCCTGAGCCTGAGATTGTTCACTACAACCCCAAGGAGTTCGATTTTGGCAAAAAGAAAGCATTCCCATTCCGTGACCAG
















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|31468986|gb|CD411014.1|CD411014
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|192311714|gb|FK003575.1|FK003575
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|20448825|gb|BQ252949.1|BQ252949
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|10238358|gb|BE807174.1|BE807174
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31458918|gb|CD400946.1|CD400946
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120531868|gb|EH260001.1|EH260001
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120531132|gb|EH259265.1|EH259265
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTTAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209718792|gb|BW671993.1|BW671993
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCGTTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120534655|gb|EH262788.1|EH262788
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209719200|gb|BW665866.1|BW665866
EST:     ATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: ATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|214008768|gb|DB988261.1|DB988261
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209721698|gb|BW682539.1|BW682539
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209723822|gb|BW682959.1|BW682959
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31468934|gb|CD410962.1|CD410962
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|17519549|gb|BM188591.1|BM188591
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209708026|gb|BW657081.1|BW657081
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|9258206|gb|BE346353.1|BE346353
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAT                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|14206331|gb|BG840009.1|BG840009
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|213601855|gb|DB982580.1|DB982580
EST:     GGGAGATAAGTATGTCACCA-AAGTTGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: GGGAGATAAGTATGTCA-CATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|6134478|gb|AW132871.1|AW132871
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCCCAAGATCATACACTACAACCCTAAAGATTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGA-GATCATTCACTACAACCCTAAAGATTT
EST: gi|213600050|gb|DB979755.1|DB979755
EST:     TGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: TGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209701641|gb|BW673127.1|BW673127
EST:     AAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: AAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|9258188|gb|BE346335.1|BE346335
EST:     GCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: GCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209697178|gb|BW672943.1|BW672943
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCGAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120531334|gb|EH259467.1|EH259467
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120531252|gb|EH259385.1|EH259385
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120531009|gb|EH259142.1|EH259142
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|9258148|gb|BE346295.1|BE346295
EST:     GCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: GCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120530943|gb|EH259076.1|EH259076
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120496238|gb|EH224405.1|EH224405
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31457494|gb|CD399522.1|CD399522
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|192311713|gb|FK003574.1|FK003574
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120528898|gb|EH257032.1|EH257032
EST:     CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGATAAGTATGTCACATTTGATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|213616911|gb|DB978901.1|DB978901
EST:     GGAGATAAGTATGTCA-A-TTGAAATGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: GGAGATAAGTATGTCACATTTG--ATGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcaattaaatttgatacatgtattgtaatttttgtttattttggcattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTTGATTTTGGGAAAAAGAAATCATTTCCATTCCGTGACCAG
         atttgat  putative branch site (score: 5)
                                             cattttcc  putative PPT
     ttaaatttgatacatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcattcatgccatgtcatatttaaggtgaccaatagaaagcagaaggaaaatgccttaatatgtcaagcaattaaatttgatacatgtattgtaatttttgtttattttggcattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTTGATTTTGGGAAAAAGAAATCATTTCCATTCCGTGACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA