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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaggattttgtgtcattgatgtgaatgtctgtttgtaccattctaactggttaaccaaacacacacacaactcatagcatctcaattttcatattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAGAAGGCAGAAGGTGTTGATTTATCAGGCTATGGATCATCCAAAGTGGTTC

Basic information

species Glycine max
transcript GLYMA19G43400.1
intron # 6
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|10256501|gb|BE824267.1|BE824267
EST:     ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|7692518|gb|AW760622.1|AW760622
EST:     ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|22928733|gb|BU545872.1|BU545872
EST:     ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|193654476|gb|FK600586.1|FK600586
EST:     CTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: CTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|193318943|gb|FK285877.1|FK285877
EST:     GCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: GCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|20813437|gb|BQ297915.1|BQ297915
EST:     ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|10255617|gb|BE823383.1|BE823383
EST:     ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|192308376|gb|FK000900.1|FK000900
EST:     ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
EST: gi|192308771|gb|FK000119.1|FK000119
EST:     ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAG                         GATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG
genomic: ATACATTAATCAAAGAGAAACTTGGCTGGGCTCCAACTATGAAGTTGAAGgtattattgt ... catattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactggttaaccaaacacacacacaactcatagcatctcaattttcatattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAGAAGGCAGAAGGTGTTGATTTATCAGGCTATGGATCATCCAAAGTGGTTC
                                         ttttcat  CT-rich tract
                                       aattttcatattgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaggattttgtgtcattgatgtgaatgtctgtttgtaccattctaactggttaaccaaacacacacacaactcatagcatctcaattttcatattgtagGATGGGCTGAGAATTACATACTTTTGGATCAAAGAGCAGCTTGAGAAAGAGAAGGCAGAAGGTGTTGATTTATCAGGCTATGGATCATCCAAAGTGGTTC

- - - ttttgtg
- - - - - - - - -tgatgtg
- - - - - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - ccattct
- - - - - - - - - - - - - - - - - - - - - - - actggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacaca