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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctgtttacaagcatgtgaacttataattgcatgagaacataggagggctttttccaaattctaattctaattttaatatcaaacatttgtttatacagGTGGGCAAACAAGTATCAG

Basic information

species Glycine max
transcript GLYMA17G07390.1
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|15813660|gb|BI785935.1|BI785935
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAGGCCATAT
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacct ... gtttatacagGTGGGCAAACAAGTATCAGGCCATAT
EST: gi|298186094|gb|HO036727.1|HO036727
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacct ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|120532471|gb|EH260604.1|EH260604
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacct ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|208147226|gb|GD944921.1|GD944921
EST:     ATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: ATTTCAAGTCTGGGATTTAGgtaacgacct ... gtttatacagGTGGGCAAACAAGTATCAG
EST: gi|193708401|gb|FK645423.1|FK645423
EST:     TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAG                         GTGGGCAAACAAGTATCAG
genomic: TGTCGAAACAGTGCAGTATAACAACATTAAATTTCAAGTCTGGGATTTAGgtaacgacct ... gtttatacagGTGGGCAAACAAGTATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggctttttccaaattctaattctaattttaatatcaaacatttgtttatacagGTGGGCAAACAAGTATCAG
                                          tttgttt  CT-rich tract
            aaattctaattctaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctgtttacaagcatgtgaacttataattgcatgagaacataggagggctttttccaaattctaattctaattttaatatcaaacatttgtttatacagGTGGGCAAACAAGTATCAG

ttctgtt
- - - -tacaagc
- - - - - - - -tgtgaac
- - - - - - - - - - - - - - -tgcatga
- - - - - - - - - - - - - - - - - - - - - aggaggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacat