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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcgagttctagttatgacattacgacatagttataagttgataaccattgtatgtgctgcgtggttaatggctcatttcctttatttcattcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAGTTGCTGCCGGATCCATGGACTCCTGAATCTGGATTGGTCACTGCAGCTC

Basic information

species Glycine max
transcript GLYMA20G07280.1
intron # 10
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|192298315|gb|FG992105.1|FG992105
EST:     TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
EST: gi|11687916|gb|BF595592.1|BF595592
EST:     TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
EST: gi|5753616|gb|AI960903.1|AI960903
EST:     TGTGTAACANACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGA
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGA
EST: gi|6069481|gb|AW099161.1|AW099161
EST:     TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
EST: gi|7028370|gb|AW458153.1|AW458153
EST:     GCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: GCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
EST: gi|120529641|gb|EH257775.1|EH257775
EST:     TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
EST: gi|22929083|gb|BU546222.1|BU546222
EST:     TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
EST: gi|10234151|gb|BE803039.1|BE803039
EST:     TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
EST: gi|7796660|gb|AW782055.1|AW782055
EST:     TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAG                         GTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG
genomic: TGTGTAACAAACCTGAAACTGTCACTGAGGTTCTGCAGTCTATTTCCAAGgttagtgtta ... ttcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattgtatgtgctgcgtggttaatggctcatttcctttatttcattcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAGTTGCTGCCGGATCCATGGACTCCTGAATCTGGATTGGTCACTGCAGCTC
                  ggttaat  putative branch site (score: 4)
 tttcctttatttcatt  putative PPT
 tttatttcattcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcgagttctagttatgacattacgacatagttataagttgataaccattgtatgtgctgcgtggttaatggctcatttcctttatttcattcatttcagGTTGCAAAATCTGCAAAGCTGGAGAAAACTGAAATTCCTGCAAAGATTAAGTTGCTGCCGGATCCATGGACTCCTGAATCTGGATTGGTCACTGCAGCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtgctgc