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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatttatccctcatcccctattactttccttactctttccttccttctcttatttctctttgataattagcaatatgattttccaccatcagGCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATACGCAACTTTCGAAGATGAAGACTCTCTCATGGATGGGTCTTCACACTTAA

Basic information

species Glycine max
transcript GLYMA17G10040.1
intron # 5
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|26048842|gb|CA785295.1|CA785295
EST:     TTTCTGAATGCGATTATGTCACAGTAGATAAGCTGACTGAAACTGAAAAG                         GCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATAC
genomic: TTTCTGAATGCGATTATGTCACAGTAGATAAGCTGACTGAAACTGAAAAGgcatttatcc ... ccaccatcagGCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATAC
EST: gi|17152829|gb|BM142762.1|BM142762
EST:     TTTCTGAATGCGATTATGTCACAGTAGATAAGCTGACTGAAACTGAAAAG                         GCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATAC
genomic: TTTCTGAATGCGATTATGTCACAGTAGATAAGCTGACTGAAACTGAAAAGgcatttatcc ... ccaccatcagGCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATAC
EST: gi|192311693|gb|FK004884.1|FK004884
EST:     TTTCTGAATGCGATTATGTCACAGTAGATAAGCTGACTGAAACTGAAAAG                         GCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATAC
genomic: TTTCTGAATGCGATTATGTCACAGTAGATAAGCTGACTGAAACTGAAAAGgcatttatcc ... ccaccatcagGCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttccttctcttatttctctttgataattagcaatatgattttccaccatcagGCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATACGCAACTTTCGAAGATGAAGACTCTCTCATGGATGGGTCTTCACACTTAA
                    ctttgat  putative branch site (score: 5)
                                         ttttccacc  putative PPT
                         ataattagcaatat  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcatttatccctcatcccctattactttccttactctttccttccttctcttatttctctttgataattagcaatatgattttccaccatcagGCTGATGCTCAAAACGCAGTTACTGCTGCATTAAGACAAGGGGAGAAATACGCAACTTTCGAAGATGAAGACTCTCTCATGGATGGGTCTTCACACTTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA