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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatctgaactttagtaaattgtatttctttttggttgctctagcatcaaagttgccaaccatactaactagtaattatctttggagcagCACCTCATTCAAAGAACAAAGTTCTCATGTTACCTCTGTTAAGAATATTTTAGAAAACCATGCTAGTTACCTGATGTCTGGGAAAGAGCTCTCCAAGCTT

Basic information

species Glycine max
transcript GLYMA18G47050.1
intron # 18
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|12772054|gb|BG236981.1|BG236981
EST:     GCAGAAGCAATCACTGGATAAAAG                         CACCTCATTCAAAGAACAAAGTGCTCATGTTANCCTCTGTTAAGAATATTT
genomic: GCAGAAGCAATCATTGGATAAAAGgttcatctga ... tttggagcagCACCTCATTCAAAGAACAAAGTTCTCATGTTA-CCTCTGTTAAGAATATTT
EST: gi|22522775|gb|BU081586.1|BU081586
EST:     GGCTATTTTCTTTTTCGTTCTAGTGAGCAGAAGCAATCACTGGATAAAAG                         CACCTCATTCAAAGAACAAAGTGCTCATGTTACCTCTGTTAAGAATATTTT
genomic: GGCTATTTTCTTTTTCGTTCTAGTGAGCAGAAGCAATCATTGGATAAAAGgttcatctga ... tttggagcagCACCTCATTCAAAGAACAAAGTTCTCATGTTACCTCTGTTAAGAATATTTT
EST: gi|13480087|gb|BG509438.1|BG509438
EST:     GGCTATTTTCTTTTTCGTTCTAGTGAGCAGAAGCAATCATTGGATAAAAG                         CACCTCATTCAAAGAACAAAGTTCTCATGTTACCTCTGTTAAGAATATTTT
genomic: GGCTATTTTCTTTTTCGTTCTAGTGAGCAGAAGCAATCATTGGATAAAAGgttcatctga ... tttggagcagCACCTCATTCAAAGAACAAAGTTCTCATGTTACCTCTGTTAAGAATATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctctagcatcaaagttgccaaccatactaactagtaattatctttggagcagCACCTCATTCAAAGAACAAAGTTCTCATGTTACCTCTGTTAAGAATATTTTAGAAAACCATGCTAGTTACCTGATGTCTGGGAAAGAGCTCTCCAAGCTT
                           tactaac  putative branch site (score: 0)
                                        ttatcttt  putative PPT
                              taactagtaattat  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcatctgaactttagtaaattgtatttctttttggttgctctagcatcaaagttgccaaccatactaactagtaattatctttggagcagCACCTCATTCAAAGAACAAAGTTCTCATGTTACCTCTGTTAAGAATATTTTAGAAAACCATGCTAGTTACCTGATGTCTGGGAAAGAGCTCTCCAAGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT