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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtattttgattttttctaatttactaggattttctataccttgacttgagctagagtggtgagtgattatatgctttatttgatttttggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTGTTTACTACTTCCGGAATGCTGTTTTTGGAAGTGAGCTTGCTGGCTTTTT

Basic information

species Glycine max
transcript GLYMA19G42870.1
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|298168150|gb|HO013413.1|HO013413
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|151396763|gb|EV266636.1|EV266636
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|51341748|gb|CO983065.1|CO983065
EST:     TTTGNNNCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|15664651|gb|BI702022.1|BI702022
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|151396422|gb|EV266299.1|EV266299
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|192298478|gb|FG988479.1|FG988479
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|298177590|gb|HO027257.1|HO027257
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|298166333|gb|HO008570.1|HO008570
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|13481686|gb|BG511029.1|BG511029
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|120492292|gb|EH220459.1|EH220459
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|213598325|gb|DB970181.1|DB970181
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGNAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|298192527|gb|HO036609.1|HO036609
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|151412683|gb|EV282495.1|EV282495
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|192327941|gb|FK022472.1|FK022472
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|192331168|gb|FK023721.1|FK023721
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|151409790|gb|EV279598.1|EV279598
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAG                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
EST: gi|7326844|gb|AW620642.1|AW620642
EST:     TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAA                         GCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG
genomic: TTTGCCTCTGCCTCGTTACTCTGCTCAATCTCGCTTGGTGTTTCCTCCAGgttcgttttc ... ggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgagctagagtggtgagtgattatatgctttatttgatttttggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTGTTTACTACTTCCGGAATGCTGTTTTTGGAAGTGAGCTTGCTGGCTTTTT
                      attatatgctttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgtattttgattttttctaatttactaggattttctataccttgacttgagctagagtggtgagtgattatatgctttatttgatttttggtgaatcagGCATGGGAGTGCACGTCTGGGAGAGAGTTGACATGGAATTTGTTATCCTTGTTTACTACTTCCGGAATGCTGTTTTTGGAAGTGAGCTTGCTGGCTTTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - -tgacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - agtggtg