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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagaagggtttcctttatcatgtatttttgttgatttatggacggaaaaatcttctctatgcatatgtttatcattttctatttgttggacttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCTGCTGTTGCTGATATCAGAAGCTTCTTATGTGCCAATCACTATTGTTCAG

Basic information

species Glycine max
transcript GLYMA09G35050.4
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|213597073|gb|DB968168.1|DB968168
EST:     CTTCTTCAAAGTCCCACCACTTGGTTTTCATAACCCATTCTCCATCTCAG                         AATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
genomic: CTTCTTCAAAGTCCCACCACTTGGTTTTCATAACCCATTCTCCATCTCAGgtacacctaa ... acttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
EST: gi|18733683|gb|BM527753.1|BM527753
EST:     GGTTTTCATAACCCATTCTCCATCTCAG                         AATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
genomic: GGTTTTCATAACCCATTCTCCATCTCAGgtacacctaa ... acttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
EST: gi|21888360|gb|BQ741573.1|BQ741573
EST:     GGTTTTCATAACCCATTCTCCATCTCAG                         AATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
genomic: GGTTTTCATAACCCATTCTCCATCTCAGgtacacctaa ... acttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
EST: gi|9986444|gb|BE660552.1|BE660552
EST:     CACCACTTGGTTTTCATAACCCATTCTCCATCTCAG                         AATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
genomic: CACCACTTGGTTTTCATAACCCATTCTCCATCTCAGgtacacctaa ... acttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
EST: gi|213614158|gb|DB964902.1|DB964902
EST:     CTTCTTCAAAGTCCCACCACTTGGTTTTCATAACCCATTCTCCATCTCAG                         AATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
genomic: CTTCTTCAAAGTCCCACCACTTGGTTTTCATAACCCATTCTCCATCTCAGgtacacctaa ... acttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
EST: gi|15664114|gb|BI701485.1|BI701485
EST:     CAAAGTCCCACCACTTGGTTTTCATAACCCATTCTCCATCTCAG                         AATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT
genomic: CAAAGTCCCACCACTTGGTTTTCATAACCCATTCTCCATCTCAGgtacacctaa ... acttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaaatcttctctatgcatatgtttatcattttctatttgttggacttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCTGCTGTTGCTGATATCAGAAGCTTCTTATGTGCCAATCACTATTGTTCAG
                  atatgtttatcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagaagggtttcctttatcatgtatttttgttgatttatggacggaaaaatcttctctatgcatatgtttatcattttctatttgttggacttgtgcagAATGGAGAATGCGAGAATAAGCCAGTGGTTGATCCTTCTGGTGTGTGCGCTGCTGTTGCTGATATCAGAAGCTTCTTATGTGCCAATCACTATTGTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC