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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatggactggccaaggcaaaatatctgcaaatattcccactatattttgtaccttcctctttctgaaactaatctttgggttgagtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAAGCAATTTAATTAG

Basic information

species Glycine max
transcript GLYMA05G27900.1
intron # 20
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|193545762|gb|FK500853.1|FK500853
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|7041994|gb|AW471888.1|AW471888
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|193673103|gb|FK618965.1|FK618965
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|193671515|gb|FK612041.1|FK612041
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|207689117|gb|GD673470.1|GD673470
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCA
EST: gi|51334717|gb|CO978583.1|CO978583
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|254323179|gb|GR835787.1|GR835787
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|13788695|gb|BG651286.1|BG651286
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|12690707|gb|BG157043.1|BG157043
EST:     TTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: TTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|193460590|gb|FK428031.1|FK428031
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|193716731|gb|FK654289.1|FK654289
EST:     ATAAACATGAATTACAGAATTCTTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: ATAAACATGAATTACAGAATTC-TTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|5126438|gb|AI748174.1|AI748174
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
EST: gi|209703470|gb|BW678247.1|BW678247
EST:     GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG                         AGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA
genomic: GATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAGgtaatatgga ... agtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatattttgtaccttcctctttctgaaactaatctttgggttgagtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAAGCAATTTAATTAG
                            aactaat  putative branch site (score: 2)
 attttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatatggactggccaaggcaaaatatctgcaaatattcccactatattttgtaccttcctctttctgaaactaatctttgggttgagtcttgtagAGAATGGGCCATATCAGGAGAAAGCTAAAGCCATCTACGAAGAATTGAGAAGCAATTTAATTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA