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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcggattcttgtttttgttggagatctttctttctttgattccaccagcctcattgtcttagggtttttgtttcgagcatagatgttgttgtcgatgattacttactagttttggtttgcttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG

Basic information

species Glycine max
transcript GLYMA02G46380.2
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|8826851|gb|BE210581.1|BE210581
EST:     CGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: CGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|192295237|gb|FG986956.1|FG986956
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|298167466|gb|HO012729.1|HO012729
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCTAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTGGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|207806334|gb|GD778811.1|GD778811
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|213594578|gb|DB957997.1|DB957997
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|207680118|gb|GD663732.1|GD663732
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|193598561|gb|FK554615.1|FK554615
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|208318519|gb|GE113744.1|GE113744
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
EST: gi|7147468|gb|AW509390.1|AW509390
EST:     GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATATAG                         ATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
genomic: GTGCATCCATCGTTAAGCTAGTGGCGATCGGATCCAGCTACAGCATAGAGgtgcggattc ... ttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcatagatgttgttgtcgatgattacttactagttttggtttgcttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG
                                        tttgctt  CT-rich tract
                      attactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcggattcttgtttttgttggagatctttctttctttgattccaccagcctcattgtcttagggtttttgtttcgagcatagatgttgttgtcgatgattacttactagttttggtttgcttgattgaagATCAAGGAAGGAAGGAAGGAAGATGTTGGGTGTTATAAGGCACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG