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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactattatttgattaatatatatattatatctttgcagttaaaaaaaaaatatagttgatatctgaatggtgtttgttgttctttctctatctgtgcagCTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATGAACAAACCCAAATCTCCATCCCCAGATTCATTAGATGAGACCCCTGTCT

Basic information

species Glycine max
transcript GLYMA09G39770.1
intron # 23
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|192328352|gb|FK020063.1|FK020063
EST:     CGACATCTGGCTGAGCTCACTGAG                         CTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATG
genomic: CGACATCTGGCTGAGCTCACTGAGgtaggtattc ... atctgtgcagCTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATG
EST: gi|213600636|gb|DB968768.1|DB968768
EST:     ACTATAAATGAATTCAGATCTCGACATCTGGCTGAGCTCACTGAG                         CTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATG
genomic: ACTATAAATGAATTCAGATCTCGACATCTGGCTGAGCTCACTGAGgtaggtattc ... atctgtgcagCTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATG
EST: gi|208279643|gb|GE078372.1|GE078372
EST:     CAGCTACTATAAATGAATTCAGATCTCGACATCTGGCTGAGCTCACTGAG                         CTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATG
genomic: CAGCTACTATAAATGAATTCAGATCTCGACATCTGGCTGAGCTCACTGAGgtaggtattc ... atctgtgcagCTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaatatagttgatatctgaatggtgtttgttgttctttctctatctgtgcagCTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATGAACAAACCCAAATCTCCATCCCCAGATTCATTAGATGAGACCCCTGTCT
         agttgat  putative branch site (score: 5)
                            tttgttgttctttctc  putative PPT
     atatagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactattatttgattaatatatatattatatctttgcagttaaaaaaaaaatatagttgatatctgaatggtgtttgttgttctttctctatctgtgcagCTGTGTGAAGCAAGTGGAAGTTCTCTTGGTTATGGATTTAATAGAATTATGAACAAACCCAAATCTCCATCCCCAGATTCATTAGATGAGACCCCTGTCT

- - - - - - - - - - - - - - - -ctttgca
- - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggtg