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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttgatagttgccttaattgctaattgaataaatgaaaatgtaacttgctgctattactttcctgatggcgagcttactctcaatgtgtatatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATTGGGATAAGTTGGAAGCTCAAGTGAAAAAAGAG

Basic information

species Glycine max
transcript GLYMA11G02340.1
intron # 5
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|193352697|gb|FK315973.1|FK315973
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATGGGCCGATAG                         TTCAATCTGAAAGGT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGT
EST: gi|193335866|gb|FK299796.1|FK299796
EST:     TGGAATATGGCAAAGGAATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TGGAATATGGC-AAGG-ATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193721610|gb|FK661650.1|FK661650
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193388292|gb|FK356145.1|FK356145
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCCGCATATCCATCATCAAAACCGAGG
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGG
EST: gi|193389480|gb|FK354365.1|FK354365
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATGGGCCGATAG                         TTCAATCTGAAAGGT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGT
EST: gi|193605125|gb|FK559869.1|FK559869
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|208322352|gb|GE121693.1|GE121693
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGNGGACAAGNGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193519229|gb|FK474994.1|FK474994
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGA
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGA
EST: gi|208106192|gb|GD905133.1|GD905133
EST:     TAAATAGGCCGATAG                         T
genomic: TAAATAGGCCGATAGgtgagatgac ... atatatgcag-
EST: gi|208106192|gb|GD905133.1|GD905133
EST:     TAAATAGGCCGATAG                         T
genomic: TAAATAGGCCGATAGgtgagatgac ... atatatgcag-
EST: gi|208271348|gb|GE068326.1|GE068326
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193382871|gb|FK347734.1|FK347734
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193544466|gb|FK500677.1|FK500677
EST:     TGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193417493|gb|FK382919.1|FK382919
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|208232523|gb|GE032276.1|GE032276
EST:     TAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193589032|gb|FK541830.1|FK541830
EST:     TCCGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193423809|gb|FK387698.1|FK387698
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|193388140|gb|FK353865.1|FK353865
EST:     TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: TCTGGAATATGGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
EST: gi|208223060|gb|GE024333.1|GE024333
EST:     GGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAG                         TTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT
genomic: GGCAAGGATATGCTTCCCCCAATAATAAATAGGCCGATAGgtgagatgac ... atatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgctgctattactttcctgatggcgagcttactctcaatgtgtatatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATTGGGATAAGTTGGAAGCTCAAGTGAAAAAAGAG
                           agcttac  putative branch site (score: 3)
        tattacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctttgatagttgccttaattgctaattgaataaatgaaaatgtaacttgctgctattactttcctgatggcgagcttactctcaatgtgtatatatgcagTTCAATCTGAAAGGTCTGCATATCCATCATCAAAACCGAGGACAAGAGATTGGGATAAGTTGGAAGCTCAAGTGAAAAAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - gttgcct
- - - - - - - - - - - - - - - -aaatgaaa
- - - - - - - - - - - - - - - - - - - - - - - ttgctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgtg