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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaacatggttggaaggggagactccaccaaagattctaatcctaatgataaaaatcatctttgtcgaatggccatcatcatgatctgtttttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAGCTCTGGCAGCTTCTATGGAGAGCATGAAAGAATCAACTGCTATGGCTGG

Basic information

species Glycine max
transcript GLYMA16G18450.1
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|208139581|gb|GD933965.1|GD933965
EST:     CGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAG                         CCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
genomic: CGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAGgtatgttgct ... tttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
EST: gi|6848849|gb|AW351139.1|AW351139
EST:     CATGTCTCACAAGCGTNNNAGAGGAAGTTCTAGCCCACCAAAATNNAAAG                         CCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
genomic: CATGTCTCACAAGCGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAGgtatgttgct ... tttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
EST: gi|58018629|gb|CX705371.1|CX705371
EST:     CATGTCTCACAAGCGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAG                         CCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
genomic: CATGTCTCACAAGCGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAGgtatgttgct ... tttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
EST: gi|208287618|gb|GE087886.1|GE087886
EST:     CGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAG                         CCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
genomic: CGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAGgtatgttgct ... tttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
EST: gi|193349439|gb|FK318557.1|FK318557
EST:     CATGTCTCACAAGCGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAG                         CCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG
genomic: CATGTCTCACAAGCGTCCTAGAGGAAGTTCTAGCCCACCAAAATCTAAAGgtatgttgct ... tttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgataaaaatcatctttgtcgaatggccatcatcatgatctgtttttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAGCTCTGGCAGCTTCTATGGAGAGCATGAAAGAATCAACTGCTATGGCTGG
 tcctaat  putative branch site (score: 2)
                                       tctgttttt  putative PPT
     aaaaatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaacatggttggaaggggagactccaccaaagattctaatcctaatgataaaaatcatctttgtcgaatggccatcatcatgatctgtttttatgtcagCCTTGGTAGAATCAGATGAGAATAAAGAGGAGTATGAGGAAGTTCAAAGAGCTCTGGCAGCTTCTATGGAGAGCATGAAAGAATCAACTGCTATGGCTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - tggttgg
- - - - - - - aggggag
- - - - - - - - - - - ctccacc
- - - - - - - - - - - - - - - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgatc