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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacttcctataggtcaaagtgagagttttcttattccattaactgcacaattagtaacattcgaagtgtctaaacaccatattttctccattgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGCGATCCAGTTTCTGCTGCTGAGGAAATTGCTTTCTGCAAATCTTGTGCCC

Basic information

species Glycine max
transcript GLYMA20G39380.1
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|298193221|gb|HO033655.1|HO033655
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGACTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|15337662|gb|BI498318.1|BI498318
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|298186506|gb|HO037139.1|HO037139
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCA
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCA
EST: gi|31309592|gb|CD394795.1|CD394795
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|5752523|gb|AI959810.1|AI959810
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|23727105|gb|BU761571.1|BU761571
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|9820305|gb|BE555815.1|BE555815
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGNGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCAT
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCAT
EST: gi|193378013|gb|FK344116.1|FK344116
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|192296449|gb|FG989109.1|FG989109
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|6667719|gb|AW279170.1|AW279170
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|192331857|gb|FK026641.1|FK026641
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|22931765|gb|BU548904.1|BU548904
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTG
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTG
EST: gi|209703325|gb|BW683305.1|BW683305
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGA
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGA
EST: gi|5761005|gb|AI966368.1|AI966368
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|192305590|gb|FG994328.1|FG994328
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|209726362|gb|BW658008.1|BW658008
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|192299222|gb|FG990705.1|FG990705
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|193554240|gb|FK516309.1|FK516309
EST:     ACTGTCGTATACCGTCTTACTGTACGGGGATCTTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: ACTGTCGTATACCGTCTTACTGTACGGGGATC-TGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|192331856|gb|FK026640.1|FK026640
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|298190202|gb|HO032323.1|HO032323
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|209708833|gb|BW661800.1|BW661800
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|208223912|gb|GE023981.1|GE023981
EST:     CTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGAGTCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGGATATCACCCACGTGATGGCTCCA
genomic: CTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGA-TCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACG-ATATCACCCA-GTGATGGCTCCA
EST: gi|298197281|gb|HO044760.1|HO044760
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGGG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|15204338|gb|BI427106.1|BI427106
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|120533699|gb|EH261832.1|EH261832
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|209708805|gb|BW661799.1|BW661799
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|17401633|gb|BM178415.1|BM178415
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|19347078|gb|BM891958.1|BM891958
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|214008845|gb|DB989619.1|DB989619
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|209703326|gb|BW683306.1|BW683306
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|31465890|gb|CD407918.1|CD407918
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGACTGGCTCCATTGG
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGA-TGGCTCCATTGG
EST: gi|298175901|gb|HO015306.1|HO015306
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|18040588|gb|BM308882.1|BM308882
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCC
EST: gi|298170388|gb|HO019012.1|HO019012
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCGGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|5752789|gb|AI960076.1|AI960076
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|23734616|gb|BU765547.1|BU765547
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|208172499|gb|GD968010.1|GD968010
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|10231429|gb|BE800317.1|BE800317
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACAATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
EST: gi|192305591|gb|FG994329.1|FG994329
EST:     GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATTTGATGGAGAG                         GCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC
genomic: GCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagc ... ttgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacaattagtaacattcgaagtgtctaaacaccatattttctccattgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGCGATCCAGTTTCTGCTGCTGAGGAAATTGCTTTCTGCAAATCTTGTGCCC
                                    ttttctccatt  CT-rich tract
                                 atattttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacttcctataggtcaaagtgagagttttcttattccattaactgcacaattagtaacattcgaagtgtctaaacaccatattttctccattgatgacagGCATATCGTGAGTCAACTGGGACGATATCACCCAGTGATGGCTCCATTGGCGATCCAGTTTCTGCTGCTGAGGAAATTGCTTTCTGCAAATCTTGTGCCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- cttccta
- - - - - - - - - - - - - - - - - -ccattaa
- - - - - - - - - - - - - - - - - - - - - -tgcacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacacca