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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgttttattgtatacttcatcctatcatattagttcatgtattctattgatatatgtttgaactgtttgtaagcctaacatatatgacttgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGAGAAGTTTTTACAGCTG

Basic information

species Glycine max
transcript GLYMA16G06850.1
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|19268946|gb|BM885202.1|BM885202
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|21637841|gb|BM107996.1|BM107996
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAN
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAG-AAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAG
EST: gi|192310375|gb|FK002255.1|FK002255
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|33390099|gb|CA853306.1|CA853306
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|11273943|gb|BF324331.1|BF324331
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|16348194|gb|BI973789.1|BI973789
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|254331186|gb|GR843305.1|GR843305
EST:     GCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: GCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|19453077|gb|BM954487.1|BM954487
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|9986040|gb|BE660148.1|BE660148
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|213607767|gb|DB959106.1|DB959106
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|213608230|gb|DB970827.1|DB970827
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|37995559|gb|CF807148.1|CF807148
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
EST: gi|15663680|gb|BI701051.1|BI701051
EST:     TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG                         CTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA
genomic: TATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGGgtgagacttt ... tgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgatatatgtttgaactgtttgtaagcctaacatatatgacttgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGAGAAGTTTTTACAGCTG
     atatatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgttttattgtatacttcatcctatcatattagttcatgtattctattgatatatgtttgaactgtttgtaagcctaacatatatgacttgatgtgcagCTATCTTGTTCCAAAGAAAGGTGCTTCCCCCCAACAGTTGGAGGATGTAGAGAAGTTTTTACAGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG