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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttaaccaaattggatatttgaaatcaatatttttaacttctttcatcttatgttgttgtcagtttgcttattttattcatctgcaaattttctcttattcaagttattgacttttgagactttacttttccagCCCCCTGAGAATATGAAATATGCAGCTTTGGTGATATGTGGTTCATTCGTCATTGAAG

Basic information

species Glycine max
transcript GLYMA08G23740.1
intron # 5
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|192300735|gb|FG991117.1|FG991117
EST:     GTTCTGGTGCCACCGTTGTTAATGGAGTACAGAACTTGTGGATTGCACAG                         CCCCCTGAGAATATGAAATATGCAGCTTTGGTGATATGTGGTTCATTCGTC
genomic: GTTCTGGTGCCACCGTTGTTAATGGAGTACAGAACTTGTGGATTGCACAGgtatttaacc ... acttttccagCCCCCTGAGAATATGAAATATGCAGCTTTGGTGATATGTGGTTCATTCGTC
EST: gi|151393656|gb|EV263531.1|EV263531
EST:     GTTCTGGTGCCACCGTTGTTAATGGAGTACAGAACTTGTGGATTGCACAG                         CCCCCTGAGAATATGAAATATGCAGCTTTGGTGATATGTGGTTCATTCGTC
genomic: GTTCTGGTGCCACCGTTGTTAATGGAGTACAGAACTTGTGGATTGCACAGgtatttaacc ... acttttccagCCCCCTGAGAATATGAAATATGCAGCTTTGGTGATATGTGGTTCATTCGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgcaaattttctcttattcaagttattgacttttgagactttacttttccagCCCCCTGAGAATATGAAATATGCAGCTTTGGTGATATGTGGTTCATTCGTCATTGAAG
                          tattgac  putative branch site (score: 2)
                                         ctttacttttcc  putative PPT
      aaattttctcttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttaaccaaattggatatttgaaatcaatatttttaacttctttcatcttatgttgttgtcagtttgcttattttattcatctgcaaattttctcttattcaagttattgacttttgagactttacttttccagCCCCCTGAGAATATGAAATATGCAGCTTTGGTGATATGTGGTTCATTCGTCATTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG