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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccattgcatatttatctatttatcttggaaaggcataagatacaaatttatgtgtatttgatgatcgtaaattgataaaaaaaaataaaaaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAATGATGAAGCAATGTCTATTAG

Basic information

species Glycine max
transcript GLYMA03G37740.1
intron # 2
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|192306386|gb|FG996146.1|FG996146
EST:     AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAG                         CAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
genomic: AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAGgtatgaactt ... aaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
EST: gi|192318633|gb|FK008293.1|FK008293
EST:     AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAG                         CAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
genomic: AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAGgtatgaactt ... aaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
EST: gi|298170651|gb|HO019275.1|HO019275
EST:     AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAG                         CAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
genomic: AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAGgtatgaactt ... aaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
EST: gi|151396764|gb|EV266637.1|EV266637
EST:     AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAG                         CAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
genomic: AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAGgtatgaactt ... aaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
EST: gi|192318632|gb|FK008292.1|FK008292
EST:     AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAG                         CAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
genomic: AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAGgtatgaactt ... aaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
EST: gi|192319126|gb|FK009094.1|FK009094
EST:     AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAG                         CAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
genomic: AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAGgtatgaactt ... aaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT
EST: gi|192306387|gb|FG996147.1|FG996147
EST:     AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAG                         CAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTTTAAGATAAAT
genomic: AGAGATGGTGCAACGAAAAAGGAAATACAACCTGTGAAATATGTCTCCAGgtatgaactt ... aaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttatgtgtatttgatgatcgtaaattgataaaaaaaaataaaaaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAATGATGAAGCAATGTCTATTAG
                         aattgat  putative branch site (score: 4)
          tatttgatgatcgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cccattgcatatttatctatttatcttggaaaggcataagatacaaatttatgtgtatttgatgatcgtaaattgataaaaaaaaataaaaaaattgcagCAATACGAACCCGGATATACAGCTCCTCCGCCAAAGAAGTCTAAGATAAATGATGAAGCAATGTCTATTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
-ccattgc
- - - - - - - - - - - - - - - - - - - -gatacaaa
- - - - - - - - - - - - - - - - - - - - - - - - -tatgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa