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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaaaggagaaaataataaagagtaagttgaaaatattagaattattattaacaagggattttctagtgaaataaattatgtgcgtatgtcttatttcagATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGCACGTGTCTAGTGGAATTGTTATGATGATCTTATTTTTCTCAATTATTGC

Basic information

species Glycine max
transcript GLYMA16G26480.1
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|51344762|gb|CO985495.1|CO985495
EST:     ATTGCCTGGTAGATGTGGCCAACATGTCAATCCATTGTCCTGCCTCACAA                         ATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGC
genomic: ATTGCCTGGTAGATGTGGCCAACATGTCAATCCATTGTCCTGCCTCACAAgtatgttttc ... cttatttcagATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGC
EST: gi|308099141|gb|HO760982.1|HO760982
EST:     ATTGCCTGGTAGATGTGGCCAACATGTCAATCCATTGTCCTGCCTCACAA                         ATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGC
genomic: ATTGCCTGGTAGATGTGGCCAACATGTCAATCCATTGTCCTGCCTCACAAgtatgttttc ... cttatttcagATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGC
EST: gi|21602042|gb|BQ612373.1|BQ612373
EST:     ATTGCCTGGTAGATGTGGCCAACATGTCAATCCATTGTCCTGCCTCACAA                         ATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGC
genomic: ATTGCCTGGTAGATGTGGCCAACATGTCAATCCATTGTCCTGCCTCACAAgtatgttttc ... cttatttcagATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattaacaagggattttctagtgaaataaattatgtgcgtatgtcttatttcagATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGCACGTGTCTAGTGGAATTGTTATGATGATCTTATTTTTCTCAATTATTGC
 tattaac  putative branch site (score: 1)
                                            tcttatttc  putative PPT
             attttctagtgaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaaaaggagaaaataataaagagtaagttgaaaatattagaattattattaacaagggattttctagtgaaataaattatgtgcgtatgtcttatttcagATTCACCTGGTCCGACGAACTCAGATAGAAACTCAGCAACAAAATTGGTGCACGTGTCTAGTGGAATTGTTATGATGATCTTATTTTTCTCAATTATTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
gaaaagga
- - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtgc