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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaataagcctcgtatatcaatttgtaataaggaattttatattatgttaagctgatggattttccaactgtcatgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAGCTTGGAGAGTATGACCTATCT

Basic information

species Glycine max
transcript GLYMA06G05900.1
intron # 16
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|207823198|gb|GD794923.1|GD794923
EST:     GAGGGTCCAGTTCCTGATAATCTTAGCTCATGTAAAAACCTCAACAGCCT                         CAATGTGCATGGGAATAAG
genomic: GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCTgtaagcaata ... catgtatcagCAATGTGCATGGGAATAAG
EST: gi|193532525|gb|FK489727.1|FK489727
EST:     GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCT                         CAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
genomic: GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCTgtaagcaata ... catgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
EST: gi|193325139|gb|FK290619.1|FK290619
EST:     GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCT                         CAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
genomic: GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCTgtaagcaata ... catgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
EST: gi|192296635|gb|FG991203.1|FG991203
EST:     GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCT                         CAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
genomic: GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCTgtaagcaata ... catgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
EST: gi|193451692|gb|FK419848.1|FK419848
EST:     GAGGGTCCAGTTCTTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCT                         CAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
genomic: GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCTgtaagcaata ... catgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
EST: gi|193608922|gb|FK566084.1|FK566084
EST:     GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCT                         CAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
genomic: GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCTgtaagcaata ... catgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
EST: gi|208278224|gb|GE075721.1|GE075721
EST:     GAGGGTCCAGTTCCTGATAATCTTAGCTCATGTAAAAACCTCAACAGCCT                         CAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG
genomic: GAGGGTCCAGTTCCTGATAATCTTAGCTTGTGTAAAAACCTCAACAGCCTgtaagcaata ... catgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaggaattttatattatgttaagctgatggattttccaactgtcatgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAGCTTGGAGAGTATGACCTATCT
                       agctgat  putative branch site (score: 4)
      aattttatattatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcaataagcctcgtatatcaatttgtaataaggaattttatattatgttaagctgatggattttccaactgtcatgtatcagCAATGTGCATGGGAATAAGCTGAGTGGAACAGTCCCCTCAGCTTTTCATAGCTTGGAGAGTATGACCTATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA