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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagatattgtactattcttcctagggcatggtttcaatttataaaatcttgtaccaacatactcgtaccaagtttttgctggttttatccacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAAGAGGCTTGTAAAAAGGCCAACGTTCCCCTACTGTTACGTTTCCAACCTG

Basic information

species Glycine max
transcript GLYMA02G33350.1
intron # 6
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|15000383|gb|BI321197.1|BI321197
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|193448655|gb|FK413380.1|FK413380
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTG
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTG
EST: gi|208139460|gb|GD933928.1|GD933928
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|208311366|gb|GE108602.1|GE108602
EST:     TTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: TTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|151402748|gb|EV272561.1|EV272561
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCGG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|151409952|gb|EV279760.1|EV279760
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|58017950|gb|CX704692.1|CX704692
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|7234496|gb|AW569833.1|AW569833
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATATTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|151409483|gb|EV279291.1|EV279291
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|15202064|gb|BI425203.1|BI425203
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|208081956|gb|GD881264.1|GD881264
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|57575937|gb|CX548908.1|CX548908
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|193316845|gb|FK281091.1|FK281091
EST:     ACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: ACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|151396504|gb|EV266381.1|EV266381
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGA
EST: gi|58020784|gb|CX707526.1|CX707526
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|193317065|gb|FK279869.1|FK279869
EST:     CATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: CATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|192314973|gb|FK010791.1|FK010791
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|10255594|gb|BE823360.1|BE823360
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|151404093|gb|EV273903.1|EV273903
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|22927529|gb|BU544668.1|BU544668
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|193421637|gb|FK391896.1|FK391896
EST:     ATGTTTCTTCCACCATTTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: ATGTTTCTTCCACCA-TTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|13789108|gb|BG651699.1|BG651699
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|192298137|gb|FG991417.1|FG991417
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|208323145|gb|GE118734.1|GE118734
EST:     GGTAACTAAAGTTTCCC-ATGTTTCTTCCTACCTATTTTGTATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGA
genomic: GGTAAC-AAAGTTTCCCAATGTTTCTTCC-ACC-ATTTTG-ATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGA
EST: gi|192296777|gb|FG993075.1|FG993075
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|58021316|gb|CX708057.1|CX708057
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCCCAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|15286136|gb|BI470027.1|BI470027
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCTTTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
EST: gi|58017299|gb|CX704041.1|CX704041
EST:     GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAG                         GGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA
genomic: GTTTGGTAACAAAGTTTCCCAATGTTTCTTCCACCATTTTGATTGATCAGgtaaaaattg ... cacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcttgtaccaacatactcgtaccaagtttttgctggttttatccacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAAGAGGCTTGTAAAAAGGCCAACGTTCCCCTACTGTTACGTTTCCAACCTG
                                      ttttatccacttttc  CT-rich tract
                         aagttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcagatattgtactattcttcctagggcatggtttcaatttataaaatcttgtaccaacatactcgtaccaagtttttgctggttttatccacttttcagGGAGAAGATGACAAATTTTTGCCTGATCAACTGTTGCCTCACAAGTTTGAAGAGGCTTGTAAAAAGGCCAACGTTCCCCTACTGTTACGTTTCCAACCTG

- - - - - - - -ttcttcc
- - - - - - - - - - - - - gcatggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccaacat