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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtttacctgatcattatgtaaatatcaatttgaatgcttaatgagacaacaactctgatatatttaaagtcattttctttttctttcttaaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACCTCAGATCACTA

Basic information

species Glycine max
transcript GLYMA16G18440.1
intron # 1
splice site 3'
intron type U2

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|12496615|gb|BG047153.1|BG047153
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|298165973|gb|HO008944.1|HO008944
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|20813057|gb|BQ297535.1|BQ297535
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|21887733|gb|BQ740946.1|BQ740946
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|192310120|gb|FK002560.1|FK002560
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|298186415|gb|HO037048.1|HO037048
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGACGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|207753581|gb|GD725993.1|GD725993
EST:     GTCATTGGTTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|192322959|gb|FK016690.1|FK016690
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|208052803|gb|GD853920.1|GD853920
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGACAAAGAATGACAGGTGGG
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGG-CAA-GA-TGACAAGTGGG
EST: gi|213605604|gb|DB970719.1|DB970719
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|298182343|gb|HO026518.1|HO026518
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|8282692|gb|BE020253.1|BE020253
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|298195637|gb|HO044028.1|HO044028
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACCGGCGAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|192326148|gb|FK016265.1|FK016265
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|23730618|gb|BU763398.1|BU763398
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|298199056|gb|HO042419.1|HO042419
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|192296023|gb|FG989417.1|FG989417
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|16345083|gb|BI970678.1|BI970678
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|298166418|gb|HO010997.1|HO010997
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|192323212|gb|FK016343.1|FK016343
EST:     GTCATTGGCTCTACTC-G--GCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|192327498|gb|FK019625.1|FK019625
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|7640437|gb|AW734739.1|AW734739
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|298197136|gb|HO041879.1|HO041879
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
EST: gi|192329317|gb|FK020236.1|FK020236
EST:     GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAG                         GTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC
genomic: GTCATTGGCTCTACTCGGCAGCAGCAGCAGCGTCAAATCACTGGCAAGAGgtttgcaatt ... taaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agacaacaactctgatatatttaaagtcattttctttttctttcttaaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACCTCAGATCACTA
         ctctgat  putative branch site (score: 4)
                          tcattttctttttctt  putative PPT
              atatatttaaagtcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgtttacctgatcattatgtaaatatcaatttgaatgcttaatgagacaacaactctgatatatttaaagtcattttctttttctttcttaaattgtagGTCGAGGCAAGATGACAAGTGGGAACATGATCTCTTCGACAATGACAAACCTCAGATCACTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA