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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgtggtactatgtgtcgtggtatccattgaatgtttttgaagccatgatttttataatgacctcattattctaaacataatgattaataattcctaataagttcctttgagtcatttggttcgtcccttgttaactttgagggtttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG

Basic information

species Glycine max
transcript GLYMA17G34990.1
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|209713753|gb|BW681879.1|BW681879
EST:     AGATGACTACATTTCATT-GTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGAC
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGAC
EST: gi|9901090|gb|BE610058.1|BE610058
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
EST: gi|254339165|gb|GR847882.1|GR847882
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
EST: gi|20498112|gb|BQ273042.1|BQ273042
EST:     AGATGACTACATTTCATTTGGTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAA
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAA
EST: gi|33390324|gb|CA853519.1|CA853519
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
EST: gi|207747307|gb|GD721258.1|GD721258
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTA-T-T-                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
EST: gi|18040715|gb|BM309009.1|BM309009
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAAGGAAGAAGTTCGTGTCCTCCTTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAA-GGAAGAAGTTCGTGTCCTCCTT-CGACAG
EST: gi|5760980|gb|AI966343.1|AI966343
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
EST: gi|192296230|gb|FG991556.1|FG991556
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
EST: gi|209709559|gb|BW661886.1|BW661886
EST:     AGATGACTACATTTCATT-GTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCG
EST: gi|254336075|gb|GR841400.1|GR841400
EST:     AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTG                         GCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
genomic: AGATGACTACATTTCATTTGTTGGCCTCCTTGCAGATCCACGTTATTGTGgtagtgtggt ... ttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttcctttgagtcatttggttcgtcccttgttaactttgagggtttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG
                             tgttaac  putative branch site (score: 2)
                               ttaacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtgtggtactatgtgtcgtggtatccattgaatgtttttgaagccatgatttttataatgacctcattattctaaacataatgattaataattcctaataagttcctttgagtcatttggttcgtcccttgttaactttgagggtttgcatgtagGCAAATCATATGATGAGAAGGAAGAAGTTCGTGTCCTCCTTCGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT