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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatataaatattttgtgtcagtgtttaattcctctatttatttcagtcagttgtatactatgtttgatataatgatgattttgttgttaattttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATATTCGGATGGTCTTCGTTGCTAAAAGTTCAGTTGGACACTTCACTGCTTTT

Basic information

species Glycine max
transcript GLYMA16G18370.1
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|57574914|gb|CX547889.1|CX547889
EST:     TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
EST: gi|23735351|gb|BU765949.1|BU765949
EST:     TCGAGGTCGATAAGATTCCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: TCGAGGTCGATAAGATTCCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
EST: gi|298187412|gb|HO034561.1|HO034561
EST:     TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
EST: gi|58019503|gb|CX706245.1|CX706245
EST:     -TGCCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
EST: gi|9204952|gb|BE331176.1|BE331176
EST:     TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
EST: gi|192304972|gb|FG997112.1|FG997112
EST:     TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
EST: gi|207762394|gb|GD731631.1|GD731631
EST:     CCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: CCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
EST: gi|26269004|gb|CA820067.1|CA820067
EST:     TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGG                         AAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT
genomic: TTGGCCAGAGACGGCGTCGAATTCGAGGTCGATAAGATTCCTGCCTCTGGgtcagttacc ... ttttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcagttgtatactatgtttgatataatgatgattttgttgttaattttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATATTCGGATGGTCTTCGTTGCTAAAAGTTCAGTTGGACACTTCACTGCTTTT
                                       tgttaat  putative branch site (score: 3)
                                             ttttgttc  CT-rich tract
                     atataatgatgatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatataaatattttgtgtcagtgtttaattcctctatttatttcagtcagttgtatactatgtttgatataatgatgattttgttgttaattttgttcagAAATCATGGGGGTCATCTCAAAACAAAGGGAATCGTGTATTTGTCAAATATTCGGATGGTCTTCGTTGCTAAAAGTTCAGTTGGACACTTCACTGCTTTT

- - - - - ttttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgtttg