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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgcatgtgttttagattagaagtattatccctgaggctgaaagggtgtcaataaacccaaaaagatcttaaatctagttgcatggtgttgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTTGGAGGAAGAGATGAGCAAATTGGAAGCCAGTGATATTTATGGGCCTTAG

Basic information

species Glycine max
transcript GLYMA20G28500.1
intron # 3
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|208332393|gb|GE128658.1|GE128658
EST:     CTGCAAGAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAG                         GGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT
genomic: CTGCAAGAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAGgtaaatttgc ... tgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT
EST: gi|6747168|gb|AW317624.1|AW317624
EST:     TTTCACTGCAAGAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAG                         GGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT
genomic: TTTCACTGCAAGAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAGgtaaatttgc ... tgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT
EST: gi|192298444|gb|FG988460.1|FG988460
EST:     TTTCACTGCAAGAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAG                         GGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTAC
genomic: TTTCACTGCAAGAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAGgtaaatttgc ... tgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTAC
EST: gi|9819693|gb|BE555206.1|BE555206
EST:     GACATCTACATGTACAG                         GGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT
genomic: GACATCTACATGTACAGgtaaatttgc ... tgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT
EST: gi|6747212|gb|AW317668.1|AW317668
EST:     TTTCACTGCAACAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAG                         GGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT
genomic: TTTCACTGCAAGAAAAATCTTGGGCAGGGTAAAGACATCTACATGTACAGgtaaatttgc ... tgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgtcaataaacccaaaaagatcttaaatctagttgcatggtgttgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTTGGAGGAAGAGATGAGCAAATTGGAAGCCAGTGATATTTATGGGCCTTAG
               aaaaagatcttaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgcatgtgttttagattagaagtattatccctgaggctgaaagggtgtcaataaacccaaaaagatcttaaatctagttgcatggtgttgtgttgcagGGGTGAGAGAGCATTTTGCAGCAATGAATGCCGGTACCAAGGGATGCTGTTGGAGGAAGAGATGAGCAAATTGGAAGCCAGTGATATTTATGGGCCTTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG