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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgagttcatgaaatctttttagctctgatattttcttgtcaagtgcttctcgaataccactactcatcttgtacatggtcctcacttctcactgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCTGAGAATTG

Basic information

species Glycine max
transcript GLYMA05G28940.1
intron # 6
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|298197087|gb|HO041830.1|HO041830
EST:     TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGG                         GCTGAAGAGTGTGATCTATCACTTCAAA
genomic: TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGGgtacaacact ... actgaaccagGCTGAAGAGTGTGATCTATCACTTCAAA
EST: gi|192313288|gb|FK005060.1|FK005060
EST:     TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGG                         GCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT
genomic: TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGGgtacaacact ... actgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT
EST: gi|192316096|gb|FK007157.1|FK007157
EST:     TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGG                         GCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT
genomic: TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGGgtacaacact ... actgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT
EST: gi|192316097|gb|FK007158.1|FK007158
EST:     TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGG                         GCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT
genomic: TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGGgtacaacact ... actgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT
EST: gi|298169742|gb|HO021102.1|HO021102
EST:     TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGG                         GCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGC
genomic: TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGGgtacaacact ... actgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGC
EST: gi|192323363|gb|FK016374.1|FK016374
EST:     TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGG                         GCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT
genomic: TGTGGGGTGCTTCGTCTTCATGACAAAGGGGGTCATGGAAGCCACAAAGGgtacaacact ... actgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctcgaataccactactcatcttgtacatggtcctcacttctcactgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCTGAGAATTG
                                        ttctcac  putative branch site (score: 2)
                                 tcctcacttctcact  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgagttcatgaaatctttttagctctgatattttcttgtcaagtgcttctcgaataccactactcatcttgtacatggtcctcacttctcactgaaccagGCTGAAGAGTGTGATCTATCACTTCAAAGGAAATAGAGAATTTCCTAGGCTGAGAATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - catgaaa
- - - - - - - - - - - - - - - - - - tgtcaag
- - - - - - - - - - - - - - - - - - - - - - gcttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ccactac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgtac