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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctatattttctcctttgacccccctcccccctcctggttatttatttgtgttcttgaagctcaataacttaccgcataaacctctcatgtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCTAATCTGTCTACCAAAATGAA

Basic information

species Glycine max
transcript GLYMA16G31990.1
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|151410315|gb|EV280130.1|EV280130
EST:     GAAGGCATTTTGCGACTGCGCGCAGCTTAACTCTGCAATTCCTTTCCAAG                         TTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
genomic: GAAGGCATTTTGCGACTGCGCGCAGCTTAACTCTGCAATTCCTTTCCAAGgtaccagttt ... gtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
EST: gi|298197148|gb|HO041891.1|HO041891
EST:     GAAGGCATTTTGCGACTGCTCGCAGCTTAACTCTGCAATTCCTTTCCAAG                         TTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
genomic: GAAGGCATTTTGCGACTGCGCGCAGCTTAACTCTGCAATTCCTTTCCAAGgtaccagttt ... gtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
EST: gi|192328311|gb|FK020022.1|FK020022
EST:     GAAGGCATTTTGCGACTGCGCGCAGCTTAACTCTGCAATTCCTTTCCAAG                         TTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
genomic: GAAGGCATTTTGCGACTGCGCGCAGCTTAACTCTGCAATTCCTTTCCAAGgtaccagttt ... gtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
EST: gi|13563106|gb|BG551326.1|BG551326
EST:     GCGACTGCTCGCAGCTTAACTCTGCAATTCCTTTCCAAG                         TTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
genomic: GCGACTGCGCGCAGCTTAACTCTGCAATTCCTTTCCAAGgtaccagttt ... gtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
EST: gi|13480069|gb|BG509412.1|BG509412
EST:     TCTGCAATTCCTTTCCAAG                         TTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
genomic: TCTGCAATTCCTTTCCAAGgtaccagttt ... gtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
EST: gi|15204601|gb|BI427369.1|BI427369
EST:     CTTAACTCTGCAATTCCTTTCCAAG                         TTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT
genomic: CTTAACTCTGCAATTCCTTTCCAAGgtaccagttt ... gtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtgttcttgaagctcaataacttaccgcataaacctctcatgtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCTAATCTGTCTACCAAAATGAA
                      aacttac  putative branch site (score: 2)
                                     cctctcatgtttttcc  putative PPT
                   aataactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctatattttctcctttgacccccctcccccctcctggttatttatttgtgttcttgaagctcaataacttaccgcataaacctctcatgtttttccagTTGATCAAGCGACTTCAGGATTGCCTTGCATACTTTGGTGTTTGAAGAGCTAATCTGTCTACCAAAATGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - -tgacccc
- - - - - - - - - - - - -ctccccc
- - - - - - - - - - - - - - - - ctcctgg
- - - - - - - - - - - - - - - - - - - - - - - - tgtgttc