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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcctatgtaaagggatatttctttgataatgtctgggtgctcaggtgcctgttacatgttgctaaaactttactaatgaaattttctaatgttttgtttaaagcaagagggtggtttggggggatcaaagatgccttatcattttcttaaattttataataatcgaaaatttctttgatactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAATTTGCTGTGCTGAAAGGAGACTAGGAGATTTGGATTAAAATAAGGGTAC

Basic information

species Glycine max
transcript GLYMA05G25780.1
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|192332806|gb|FK026807.1|FK026807
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|254338250|gb|GR849775.1|GR849775
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|208334582|gb|GE131575.1|GE131575
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|58014756|gb|CX701498.1|CX701498
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|193565843|gb|FK526348.1|FK526348
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGA
EST: gi|17519629|gb|BM188671.1|BM188671
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|209704194|gb|BW664812.1|BW664812
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|192300083|gb|FG991873.1|FG991873
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|20812474|gb|BQ296952.1|BQ296952
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|31463811|gb|CD405839.1|CD405839
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|192332805|gb|FK026806.1|FK026806
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
EST: gi|26057405|gb|CA800319.1|CA800319
EST:     TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACG                         GTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA
genomic: TTTCTCTGTATTGCATTGCACTTATTCTGCTTCTGATTCCTCATTCAACGgtaagcctat ... atactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccttatcattttcttaaattttataataatcgaaaatttctttgatactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAATTTGCTGTGCTGAAAGGAGACTAGGAGATTTGGATTAAAATAAGGGTAC
                                        ctttgat  putative branch site (score: 5)
     atcattttcttaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcctatgtaaagggatatttctttgataatgtctgggtgctcaggtgcctgttacatgttgctaaaactttactaatgaaattttctaatgttttgtttaaagcaagagggtggtttggggggatcaaagatgccttatcattttcttaaattttataataatcgaaaatttctttgatactgatagGTTTGAAATTCAAGATACCAAAGAGAGATTACAGAGACAGTACCCTTTGAATTTGCTGTGCTGAAAGGAGACTAGGAGATTTGGATTAAAATAAGGGTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT