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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtctattcgtgcttctgcgcgtgtgactctcaaatgatttacagcatgtaatctcgatgctgtttatgcagtttgtgtttggattagtgttgttttttagtttttttacaagttcaatgcctgaatcttaatcctgtgttattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAACCTGGAAACGCAGACATGGGTATGATCGTGCAAATGATGAAGAAGCTAT

Basic information

species Glycine max
transcript GLYMA13G23700.1
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|192324138|gb|FK017869.1|FK017869
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTTGTATATGACGAGCAGTCTGGA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATT-GTATATGACGAGCAGTCTGGA
EST: gi|58017104|gb|CX703846.1|CX703846
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|193315045|gb|FK279655.1|FK279655
EST:     CCAAAACCAAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: CCAAAACC-AAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|23064026|gb|BU578799.1|BU578799
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|298178236|gb|HO023971.1|HO023971
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|254317804|gb|GR826788.1|GR826788
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|6747619|gb|AW318132.1|AW318132
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAGAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|8827706|gb|BE211445.1|BE211445
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|192324119|gb|FK017850.1|FK017850
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCGTACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
EST: gi|18848603|gb|BM567757.1|BM567757
EST:     GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG                         GCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA
genomic: GCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAGgttagtctat ... tattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttagtttttttacaagttcaatgcctgaatcttaatcctgtgttattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAACCTGGAAACGCAGACATGGGTATGATCGTGCAAATGATGAAGAAGCTAT
                               tcttaat  putative branch site (score: 3)
                                            ttatttt  putative PPT
      tttttttacaagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtctattcgtgcttctgcgcgtgtgactctcaaatgatttacagcatgtaatctcgatgctgtttatgcagtttgtgtttggattagtgttgttttttagtttttttacaagttcaatgcctgaatcttaatcctgtgttattttgcagGCATACAGAAACGGAAGAAAGACAAAATTGTATATGACGAGCAGTCTGGAACCTGGAAACGCAGACATGGGTATGATCGTGCAAATGATGAAGAAGCTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC