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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagagttctcatcctagactacctgagcggacatgttcatataatttttatttgatggtgtggacatcttagtatattttttgtttgttgatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACCAGGTACCAGCTGCTTGATCAAGTGTTTGTTGCTTATCATGTATATGTTA

Basic information

species Glycine max
transcript GLYMA04G39480.2
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|18038948|gb|BM307242.1|BM307242
EST:     AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTG                         GCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
genomic: AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTGgtaagcatgc ... gatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
EST: gi|17021047|gb|BM092081.1|BM092081
EST:     CTCCACCTCCACCACGTG                         GCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
genomic: CTCCACCTCCACCACGTGgtaagcatgc ... gatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
EST: gi|18730125|gb|BM525698.1|BM525698
EST:     AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTG                         GCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGNGAAGGGACC
genomic: AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTGgtaagcatgc ... gatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
EST: gi|298175000|gb|HO017995.1|HO017995
EST:     AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTG                         GCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
genomic: AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTGgtaagcatgc ... gatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
EST: gi|254331475|gb|GR843432.1|GR843432
EST:     AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTG                         GCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC
genomic: AGTTGGTTACTATGACTATGGTGAATATGATGCTCCACCTCCACCACGTGgtaagcatgc ... gatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatttgatggtgtggacatcttagtatattttttgtttgttgatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACCAGGTACCAGCTGCTTGATCAAGTGTTTGTTGCTTATCATGTATATGTTA
                                         tgttgat  putative branch site (score: 4)
                                               tttttc  CT-rich tract
                        ttagtatattttttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttagagttctcatcctagactacctgagcggacatgttcatataatttttatttgatggtgtggacatcttagtatattttttgtttgttgatttttcagGCCGTGGCCGTGGAAGGGGAAGAGGCCGAGGCCGTGGCCGGGGAAGGGACCAGGTACCAGCTGCTTGATCAAGTGTTTGTTGCTTATCATGTATATGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - ctcatcc
- - - - - - - - - -ctacctg
- - - - - - - - - - - - - - - - catgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgtg