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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttttgggggttgggggtagaatgcattgtgcaagtccatggaatttttgcttgccttttgaaattctatatctctcaagtgctttttcgttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGCTTGACAACACTGGAGCAATAAAG

Basic information

species Glycine max
transcript GLYMA16G27210.1
intron # 10
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|105634099|gb|DW247377.1|DW247377
EST:     ACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGATGAGC
genomic: ACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
EST: gi|193677203|gb|FK614503.1|FK614503
EST:     TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
genomic: TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
EST: gi|21256789|gb|BQ453677.1|BQ453677
EST:     TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
genomic: TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
EST: gi|254323260|gb|GR840065.1|GR840065
EST:     TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTG                         GTAGGGCTCCTAAATTCT
genomic: TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAA-TTCT
EST: gi|11412011|gb|BF424022.1|BF424022
EST:     GTACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
genomic: GTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
EST: gi|9901924|gb|BE610892.1|BE610892
EST:     TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATGTAGAAACTGTAGGTGTTGAGC
genomic: TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
EST: gi|8670051|gb|BE191158.1|BE191158
EST:     TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
genomic: TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
EST: gi|14012095|gb|BG727026.1|BG727026
EST:     TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
genomic: TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
EST: gi|7589454|gb|AW705228.1|AW705228
EST:     TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTG                         GTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC
genomic: TACAGATCATGGTGAAGAGCTGATTGCGGATGCTGTACTGTTTGCCACTGgtaaggatac ... gttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgcttgccttttgaaattctatatctctcaagtgctttttcgttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGCTTGACAACACTGGAGCAATAAAG
                                      ctttttcgtt  CT-rich tract
            ttttgaaattctatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttttgggggttgggggtagaatgcattgtgcaagtccatggaatttttgcttgccttttgaaattctatatctctcaagtgctttttcgttgctgcagGTAGGGCTCCTAATTCTAAGAGGCTGAATTTAGAAACTGTAGGTGTTGAGCTTGACAACACTGGAGCAATAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
tgttttg
- - - - gggttgg
- - - - - - - - - - gaatgca
- - - - - - - - - - - - - - - tgcaagt
- - - - - - - - - - - - - - - - - - -ccatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caagtgc