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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttgcttctttctggtttgaattggaaaacatttgaaaatttgtttcaaaatttttcttaaacattgaatatctctcttcacgcctgttgctaatatttttatattattttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTATTAAGGCAAAGCCAAAAACAGCTTAATTTTCAATTGTAAAATTTTGTTA

Basic information

species Glycine max
transcript GLYMA04G35730.1
intron # 8
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|31469095|gb|CD411123.1|CD411123
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|10256147|gb|BE823913.1|BE823913
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|10846064|gb|BF069053.1|BF069053
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GAACTGCTATAACTCTTGCTGGCGTTCTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|6071133|gb|AW100520.1|AW100520
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|8403936|gb|BE059570.1|BE059570
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|192301535|gb|FG998443.1|FG998443
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCGCCTGTGAATGCTTTTG                         GAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|16346350|gb|BI971945.1|BI971945
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|58016526|gb|CX703268.1|CX703268
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgaatatctctcttcacgcctgttgctaatatttttatattattttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTATTAAGGCAAAGCCAAAAACAGCTTAATTTTCAATTGTAAAATTTTGTTA
                          tgctaat  putative branch site (score: 2)
                                          ttattttct  putative PPT
                       tgttgctaatattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagttgcttctttctggtttgaattggaaaacatttgaaaatttgtttcaaaatttttcttaaacattgaatatctctcttcacgcctgttgctaatatttttatattattttctacagGAACTGCTATAGCTCTTGCTGGCGTTTTCCTCTATTCAAGGGTGAAGCGTATTAAGGCAAAGCCAAAAACAGCTTAATTTTCAATTGTAAAATTTTGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG