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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaatttatcaatacacactgcacatctatgaaaatagttatttatcttaattttaaactaatttgattatattaaatatgatttcatttttcatgcagGAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCCAGTACGGCGACAGTTCCTTCTCAGTTGGCTACTTCAGCCGCGAGCGCCT

Basic information

species Glycine max
transcript GLYMA18G10200.1
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|209701773|gb|BW661011.1|BW661011
EST:     CAATATTACATGTACATCTGCCCTCTGCACTCAGCTCTCTACTGCTACAG                         GAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCC
genomic: CAATATTACATGTACATCTGCCCTCTGCACTCAGCTCTCTACTGCTACAGgtaaatattt ... tttcatgcagGAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCC
EST: gi|15338163|gb|BI498819.1|BI498819
EST:     CAATATTACATGTACATCTGCCCTCTGCACTCAGCTCTCTACTGCTACAG                         GAAACGATCCAGGATGTTCCGCATCCACCAAGGCATGCATATACGGCATCC
genomic: CAATATTACATGTACATCTGCCCTCTGCACTCAGCTCTCTACTGCTACAGgtaaatattt ... tttcatgcagGAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCC
EST: gi|8670039|gb|BE191146.1|BE191146
EST:     CAATATTACATGTACATCTGCCCTCTGCACTCAGCTCTCTACTGCTACAG                         GAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCC
genomic: CAATATTACATGTACATCTGCCCTCTGCACTCAGCTCTCTACTGCTACAGgtaaatattt ... tttcatgcagGAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttaattttaaactaatttgattatattaaatatgatttcatttttcatgcagGAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCCAGTACGGCGACAGTTCCTTCTCAGTTGGCTACTTCAGCCGCGAGCGCCT
                                      tttcatttttc  CT-rich tract
     aattttaaactaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataaatttatcaatacacactgcacatctatgaaaatagttatttatcttaattttaaactaatttgattatattaaatatgatttcatttttcatgcagGAAACGATCCAGGATGTTCGGCATCCACCAAGGCATGCATATACGGCATCCAGTACGGCGACAGTTCCTTCTCAGTTGGCTACTTCAGCCGCGAGCGCCT

- - - - - caataca
- - - - - - - - -cactgca
- - - - - - - - - - - - - -ctatgaa