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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttaaaagtgattcccttctccctagcggcctagccctgcaaagtgaaaaatgagagtacaatgatttattatggttttgatccattttgatgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCAAAGGCTGCTGAGGAGCTTGAGAAAT

Basic information

species Glycine max
transcript GLYMA01G38120.1
intron # 3
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|213590261|gb|DB963838.1|DB963838
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|209698701|gb|BW660702.1|BW660702
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|213613578|gb|DB963280.1|DB963280
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|209720113|gb|BW651142.1|BW651142
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|209708951|gb|BW653492.1|BW653492
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAA-GAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|213589944|gb|DB969681.1|DB969681
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|209710662|gb|BW665074.1|BW665074
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|213601327|gb|DB956661.1|DB956661
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|208216880|gb|GE015206.1|GE015206
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
EST: gi|298164362|gb|HO014007.1|HO014007
EST:     AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCT                         GCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA
genomic: AGCCTGGCGATCCAGAATATGCTCCACCTGTCCCAGAAACCGAGACTCCTgtagtattca ... atgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaaatgagagtacaatgatttattatggttttgatccattttgatgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCAAAGGCTGCTGAGGAGCTTGAGAAAT
                                        ttttgat  putative branch site (score: 4)
 tacaatgatttattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttaaaagtgattcccttctccctagcggcctagccctgcaaagtgaaaaatgagagtacaatgatttattatggttttgatccattttgatgaatgtagGCACAAAAAAGAGCCAGAATACACAAGCTAAGGCTAGAGAAAGGAGCTGCAAAGGCTGCTGAGGAGCTTGAGAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - tgattcc
- - - - - - - - ttctccc
- - - - - - - - - - - - - - - - - ccctgca
- - - - - - - - - - - - - - - - - - - - - - -gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttttg