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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcctatgatcatagagattggttcggatgtatgatgagaatcttcttctagtagttaattgagtgttgagctattgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGTCCCAACTACCAGAAGGGTCTAGCTTTGATGCGAGCGCTTGGAGAGGATA

Basic information

species Glycine max
transcript GLYMA01G03530.1
intron # 11
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|14989894|gb|BI315575.1|BI315575
EST:     TGATNGT-GCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAA                         GAGTCAAAATTGAAAGCAGCAAGGATGCAC
genomic: TGAT-GTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagcctat ... tgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCAC
EST: gi|10844996|gb|BF068185.1|BF068185
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         GAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGT
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagcctat ... tgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGT
EST: gi|15813176|gb|BI785451.1|BI785451
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         GAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGT
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagcctat ... tgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGT
EST: gi|13787913|gb|BG650505.1|BG650505
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         GAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGT
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagcctat ... tgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGT
EST: gi|213607883|gb|DB983852.1|DB983852
EST:     TGATG-TGACAGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         GAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGA
genomic: TGATGTTG-CTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagcctat ... tgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGG-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgatgagaatcttcttctagtagttaattgagtgttgagctattgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGTCCCAACTACCAGAAGGGTCTAGCTTTGATGCGAGCGCTTGGAGAGGATA
                       agttaat  putative branch site (score: 4)
                      tagttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcctatgatcatagagattggttcggatgtatgatgagaatcttcttctagtagttaattgagtgttgagctattgcaattcagGAGTCAAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGTCCCAACTACCAGAAGGGTCTAGCTTTGATGCGAGCGCTTGGAGAGGATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT