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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attaacaaactaacgtttggtgtcaaaaaaaaaagagtcctaatgattttgattgatagtgtcttattttgtgtgtgtgatattttttatgcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAAACCTCACCCTAAGCTCAATGAAAGAATTCTGTCTTCTCTGTCACGGAGA

Basic information

species Glycine max
transcript GLYMA11G07530.1
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|33390382|gb|CA853577.1|CA853577
EST:     CTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: CTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|10235681|gb|BE804569.1|BE804569
EST:     ACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: ACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|151395789|gb|EV265666.1|EV265666
EST:     GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|58014268|gb|CX701010.1|CX701010
EST:     CACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCACCATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: CACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|192310085|gb|FK000649.1|FK000649
EST:     GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|192316515|gb|FK009312.1|FK009312
EST:     GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|192331258|gb|FK023769.1|FK023769
EST:     AGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: AGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|192321263|gb|FK014353.1|FK014353
EST:     GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|58017496|gb|CX704238.1|CX704238
EST:     CACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: CACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|151402592|gb|EV272405.1|EV272405
EST:     ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|15661703|gb|BI699074.1|BI699074
EST:     CTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: CTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|7686402|gb|AW757050.1|AW757050
EST:     TGAACTCTCTGGGTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: TGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|209729103|gb|BW655080.1|BW655080
EST:     AGTCGCCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: AGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|192333273|gb|FK026154.1|FK026154
EST:     GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: GCACTTTCTTTCACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|15203687|gb|BI426455.1|BI426455
EST:     CTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: CTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|21595665|gb|BQ610566.1|BQ610566
EST:     TCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: TCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|213596795|gb|DB964086.1|DB964086
EST:     ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|19452855|gb|BM954265.1|BM954265
EST:     AGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: AGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|58017619|gb|CX704361.1|CX704361
EST:     CACCTCTGACCTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: CACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|12689521|gb|BG155857.1|BG155857
EST:     TCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: TCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|151406239|gb|EV276054.1|EV276054
EST:     ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|15814337|gb|BI786612.1|BI786612
EST:     ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|6481455|gb|AW200726.1|AW200726
EST:     CACCAGTCACCACCTGGGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: CACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|192294924|gb|FG986647.1|FG986647
EST:     ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: ACTCACCAGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
EST: gi|209711074|gb|BW676430.1|BW676430
EST:     AGTCGCCACCTCTGAACTCTCTCTCTCATCT                         ATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA
genomic: AGTCACCACCTCTGAACTCTCTCTCTCATCTgtaagttctt ... gcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgattgatagtgtcttattttgtgtgtgtgatattttttatgcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAAACCTCACCCTAAGCTCAATGAAAGAATTCTGTCTTCTCTGTCACGGAGA
     gattgat  putative branch site (score: 4)
                                  atattttttatgctta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attaacaaactaacgtttggtgtcaaaaaaaaaagagtcctaatgattttgattgatagtgtcttattttgtgtgtgtgatattttttatgcttatgtagATAAGTCAACATGGCTCATCATGAAGATTCAAGTGCATGGAATTCGAGTAAACCTCACCCTAAGCTCAATGAAAGAATTCTGTCTTCTCTGTCACGGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - -tggtgtc
- - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - gatagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgtg