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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttcaatttccgattcgatccaaacccaaacgaaccgttttctttgccttcatcgattaacgttaatcaatcgtcgtatgaaaaatttgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCGAAGGTGCTGGATACAGCAATGTGGATATTTTCACGTACGAAGAGCTTAG

Basic information

species Glycine max
transcript GLYMA08G03070.1
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|298197661|gb|HO045140.1|HO045140
EST:     AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAG                         GTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
genomic: AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAGgtaacttcaa ... tgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
EST: gi|298191005|gb|HO038484.1|HO038484
EST:     AAACAACCTCTCCACCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAG                         GTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
genomic: AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAGgtaacttcaa ... tgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
EST: gi|213587175|gb|DB959554.1|DB959554
EST:     AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAG                         GTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
genomic: AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAGgtaacttcaa ... tgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
EST: gi|213589643|gb|DB965831.1|DB965831
EST:     AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAG                         GTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCANAGATCTCCGCG
genomic: AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAGgtaacttcaa ... tgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
EST: gi|192326778|gb|FK018905.1|FK018905
EST:     AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAG                         GTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
genomic: AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAGgtaacttcaa ... tgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
EST: gi|20813131|gb|BQ297609.1|BQ297609
EST:     AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAG                         GTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
genomic: AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAGgtaacttcaa ... tgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG
EST: gi|209705556|gb|BW673550.1|BW673550
EST:     AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAG                         GTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCNAAGATCTCCGCG
genomic: AAACAACCTCTCCATCTCCGATTCGAACGCCAAGCCTAATAAACCTGCAGgtaacttcaa ... tgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgccttcatcgattaacgttaatcaatcgtcgtatgaaaaatttgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCGAAGGTGCTGGATACAGCAATGTGGATATTTTCACGTACGAAGAGCTTAG
                                  tatgaaaaatttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacttcaatttccgattcgatccaaacccaaacgaaccgttttctttgccttcatcgattaacgttaatcaatcgtcgtatgaaaaatttgatgagtagGTCATGAATCTGGCGCTCCATTGGCTTCCATGAATATCAAAGATCTCCGCGAAGGTGCTGGATACAGCAATGTGGATATTTTCACGTACGAAGAGCTTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT