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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtgaacatgtaattgcatgagacttaatatgctataacataggagggcttttttcaaattctaattctaattttaatatcaaacatttgtttatacagGTGGGCAAACAAGTATCAG

Basic information

species Glycine max
transcript GLYMA13G01270.1
intron # 3
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|193596299|gb|FK551304.1|FK551304
EST:     TCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|192319248|gb|FK009132.1|FK009132
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|192313159|gb|FK003279.1|FK003279
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|26047527|gb|CA784291.1|CA784291
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|207761436|gb|GD733765.1|GD733765
EST:     GCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: GCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|192299620|gb|FG990002.1|FG990002
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|7042626|gb|AW472520.1|AW472520
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|192308422|gb|FK000918.1|FK000918
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTA
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTA
EST: gi|192306665|gb|FG998077.1|FG998077
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|12488647|gb|BG042170.1|BG042170
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|192326406|gb|FK017693.1|FK017693
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|10848119|gb|BF070667.1|BF070667
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATT-AG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|15813778|gb|BI786053.1|BI786053
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|9565450|gb|BE474959.1|BE474959
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|298165965|gb|HO008936.1|HO008936
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATC
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacca ... gtttatacagGTGGGCAAACAAGTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggcttttttcaaattctaattctaattttaatatcaaacatttgtttatacagGTGGGCAAACAAGTATCAG
                                          tttgttt  CT-rich tract
     ttttttcaaattctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgtgaacatgtaattgcatgagacttaatatgctataacataggagggcttttttcaaattctaattctaattttaatatcaaacatttgtttatacagGTGGGCAAACAAGTATCAG

- - - -catgtaa
- - - - - - - -tgcatga
- - - - - - - - - - - - - - -tatgcta
- - - - - - - - - - - - - - - - - - - - - aggaggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacat