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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttatataatgggtgcttcatttttccctttacttactcttgcttgatttcttcatgttttacatatataactctccagataacttgaagttctttaacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCTCGATTGTTTGGGAAG

Basic information

species Glycine max
transcript GLYMA11G02340.1
intron # 3
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:     GCGATGTAGTTGTTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTACCTGGCCAAGATGCCTATCATTACCAACC
genomic: GCGATGTAGTTG-TTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTT-CCTGGCCAAGATGCCTATCATTACCAACC
EST: gi|208171345|gb|GD973198.1|GD973198
EST:     AGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGC
genomic: AGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGC
EST: gi|207780523|gb|GD751716.1|GD751716
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTAT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTAT
EST: gi|193676052|gb|FK617826.1|FK617826
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTAT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTAT
EST: gi|193395648|gb|FK362215.1|FK362215
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|207704051|gb|GD684977.1|GD684977
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|193389480|gb|FK354365.1|FK354365
EST:     GCGATGTAGTTGTTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: GCGATGTAGTTG-TTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|208155141|gb|GD956292.1|GD956292
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|208138863|gb|GD938105.1|GD938105
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGC
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGC
EST: gi|207825580|gb|GD797291.1|GD797291
EST:     AAAAGGAAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAA
genomic: AAAAGGAA-TATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAA
EST: gi|208321460|gb|GE119541.1|GE119541
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|192329164|gb|FK021459.1|FK021459
EST:     CAAAAG-AATATCAGCAAGCGATGTAGTTGTTGACTTCG-TGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCA-GATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|193390519|gb|FK356439.1|FK356439
EST:     TATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: TATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|208092101|gb|GD889306.1|GD889306
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGNTGCCTAT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTAT
EST: gi|193592990|gb|FK548826.1|FK548826
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|208057839|gb|GD858542.1|GD858542
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTT
EST: gi|207825464|gb|GD799345.1|GD799345
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTG-CGTTCCTGGCCAAGATGC
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGC
EST: gi|208242623|gb|GE041467.1|GE041467
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
EST: gi|193461286|gb|FK428825.1|FK428825
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAG
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAG
EST: gi|193320943|gb|FK287696.1|FK287696
EST:     CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATG                         CTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT
genomic: CAAAAGGAATATCAGCAAGCGATGTAGTTGTTGACTTCGGTGAACAGATGgtaggtttat ... aacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatgttttacatatataactctccagataacttgaagttctttaacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCTCGATTGTTTGGGAAG
                                         ctttaac  putative branch site (score: 3)
                                       ttcttta  CT-rich tract
      ttttacatatataact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtttatataatgggtgcttcatttttccctttacttactcttgcttgatttcttcatgttttacatatataactctccagataacttgaagttctttaacattacagCTTAGTGTTACTATTGACGTTCCTGGCCAAGATGCCTATCATTACCAACCTCGATTGTTTGGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG