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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatattactcatccaatccatagtgcttccatgatctcctcaaagccatatcattgttcgaattagtcatctgactataacattttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTGCAAGAAAGAACTCCTTCAACCGACCCTCCAAAGCATGAATTCCAAATAG

Basic information

species Glycine max
transcript GLYMA17G12610.1
intron # 4
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|192298126|gb|FG991406.1|FG991406
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|151398293|gb|EV268164.1|EV268164
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|11687774|gb|BF595450.1|BF595450
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|14258947|gb|BG881855.1|BG881855
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|15663121|gb|BI700492.1|BI700492
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|7233662|gb|AW569007.1|AW569007
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|6915083|gb|AW396680.1|AW396680
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|23734362|gb|BU765408.1|BU765408
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|21286198|gb|BQ474069.1|BQ474069
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|15663183|gb|BI700554.1|BI700554
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|21285635|gb|BQ473506.1|BQ473506
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|15663692|gb|BI701063.1|BI701063
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|21479776|gb|BQ576459.1|BQ576459
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|15814831|gb|BI787106.1|BI787106
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|151407412|gb|EV277227.1|EV277227
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|15663707|gb|BI701078.1|BI701078
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|21285533|gb|BQ473404.1|BQ473404
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|15814835|gb|BI787110.1|BI787110
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|18039261|gb|BM307555.1|BM307555
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|151413250|gb|EV283058.1|EV283058
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|19052777|gb|BM731444.1|BM731444
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|19052798|gb|BM731465.1|BM731465
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|21285798|gb|BQ473669.1|BQ473669
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|298181005|gb|HO022444.1|HO022444
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG
EST: gi|21678290|gb|BQ630641.1|BQ630641
EST:     GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAG                         TGGCGGGAGCAGCATATTTCATTGTANCTGACAAGACTGTCTTGGCAACTG
genomic: GGCAAGAGCAAATCTCAATCACACTGCTCAAGCTCTCATAATTTCCACAGgtaaatatta ... ttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaagccatatcattgttcgaattagtcatctgactataacattttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTGCAAGAAAGAACTCCTTCAACCGACCCTCCAAAGCATGAATTCCAAATAG
                                   ctataac  putative branch site (score: 3)
                                           ttttgtc  CT-rich tract
                                    tataacatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatattactcatccaatccatagtgcttccatgatctcctcaaagccatatcattgttcgaattagtcatctgactataacattttgtcatcagTGGCGGGAGCAGCATATTTCATTGTAGCTGACAAGACTGTCTTGGCAACTGCAAGAAAGAACTCCTTCAACCGACCCTCCAAAGCATGAATTCCAAATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC