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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttatatacccatttagctgatggtatttgggttttactttttaccttaaagttacattttgcaatgaagtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCTTGATAGTTTACCATTAGGATGTTGTAATAGAACATGGAATTGGTCTCTA

Basic information

species Glycine max
transcript GLYMA05G29080.7
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|254327926|gb|GR834891.1|GR834891
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|254328642|gb|GR833014.1|GR833014
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|254328642|gb|GR833014.1|GR833014
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|254333165|gb|GR850415.1|GR850415
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|10709621|gb|BF009345.1|BF009345
EST:     AAGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACTATGCATAG                         GTATTGGCCAAG
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAG
EST: gi|193394941|gb|FK360402.1|FK360402
EST:     GCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAAGGAAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCT
genomic: GCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCC-AAGG-AATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCT
EST: gi|208292547|gb|GE091163.1|GE091163
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         C
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|208292547|gb|GE091163.1|GE091163
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         C
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|208292547|gb|GE091163.1|GE091163
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         C
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|193614275|gb|FK565929.1|FK565929
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAG
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAG
EST: gi|13477504|gb|BG507360.1|BG507360
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         C
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|13477504|gb|BG507360.1|BG507360
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         C
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|13477504|gb|BG507360.1|BG507360
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         C
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|10846315|gb|BF069233.1|BF069233
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|207827519|gb|GD800742.1|GD800742
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|207796709|gb|GD768435.1|GD768435
EST:     CTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: CTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|17022285|gb|BM093319.1|BM093319
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|192309538|gb|FK000970.1|FK000970
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|192309538|gb|FK000970.1|FK000970
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|208221963|gb|GE020345.1|GE020345
EST:     GCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: GCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|6071430|gb|AW100817.1|AW100817
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|254335227|gb|GR846724.1|GR846724
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|254335227|gb|GR846724.1|GR846724
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|151402597|gb|EV272410.1|EV272410
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|151402597|gb|EV272410.1|EV272410
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|31462734|gb|CD404762.1|CD404762
EST:     AGGAACCTAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|193694809|gb|FK634265.1|FK634265
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|193475413|gb|FK440248.1|FK440248
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAG
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAG
EST: gi|6951823|gb|AW423891.1|AW423891
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         GTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCT
EST: gi|254335228|gb|GR846725.1|GR846725
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|254335228|gb|GR846725.1|GR846725
EST:     -G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|254336493|gb|GR842672.1|GR842672
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-
EST: gi|254336493|gb|GR842672.1|GR842672
EST:     AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG                         T
genomic: AGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAGgtaggttata ... agtgaagcag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatttgggttttactttttaccttaaagttacattttgcaatgaagtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCTTGATAGTTTACCATTAGGATGTTGTAATAGAACATGGAATTGGTCTCTA
                       ttaaagttacatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggttatatacccatttagctgatggtatttgggttttactttttaccttaaagttacattttgcaatgaagtgaagcagGTATTGGCCAAGGAATTTGTGGAGTGCATACGAGAAGGCTAGTCTCTCTCTTGATAGTTTACCATTAGGATGTTGTAATAGAACATGGAATTGGTCTCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA