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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgagacaaattcagattagatacctggtctattgtacatttctcttactctgctgcaaaattttgctgttttgacatgaggtatgctttgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAGCCAGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACG

Basic information

species Glycine max
transcript GLYMA16G08080.1
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|208264634|gb|GE063954.1|GE063954
EST:     CTTTCATCGTGATCTTAAGCCTG                         AAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
genomic: CTTTCATCGTGATCTTAAGCCTGgtacttgttt ... tgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
EST: gi|10237923|gb|BE806811.1|BE806811
EST:     TTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTG                         AAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
genomic: TTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttgttt ... tgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
EST: gi|207734913|gb|GD712514.1|GD712514
EST:     TTTAGCTTACATGCGCCAGCGTGGATACTTTCATCGTGATCTTAAGCCTG                         AAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
genomic: TTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttgttt ... tgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
EST: gi|10237927|gb|BE806815.1|BE806815
EST:     TTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTG                         AAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
genomic: TTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttgttt ... tgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
EST: gi|207718281|gb|GD699195.1|GD699195
EST:     TTTAGCTTACATGCGCCAGCGTGGATACTTTCATCGTGATCTTAAGCCTG                         AAAACTTGCTGG-CACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG
genomic: TTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttgttt ... tgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttactctgctgcaaaattttgctgttttgacatgaggtatgctttgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAGCCAGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACG
                         ttttgac  putative branch site (score: 3)
                                          ctttgtttt  putative PPT
             aaaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgagacaaattcagattagatacctggtctattgtacatttctcttactctgctgcaaaattttgctgttttgacatgaggtatgctttgttttgcagAAAACTTGCTGGTCACCAAAGATGTCATCAAGATTGCTGATTTTGGCCTAGCCAGAGAGATCAGTTCACTACCACCCTATACTGAGTATGTCTCCACACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- -gagacaaa
- - - - - - - - - - -atacctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgct