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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgttaaaacgaccttttaaggaatgtgttcgttttgctgtccaaaaaaataaaaaaggaatgtgttcgttgatattatgtttttcttgttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCGTCATTTGCCATGAGGTTGCAGCAACTTTTGATCTGGAGATTTAACTGAA

Basic information

species Glycine max
transcript GLYMA20G32800.2
intron # 4
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|31470718|gb|CD412746.1|CD412746
EST:     CTCTTCAGAGGAAATGGAGCTAAAGAAGTTTGTGCTTGACTTGGATGAAG                         CGACAGCTCCCTCAACAAACTTAAGGTGTTTCAGTTAAAGAGCTCAGTCCT
genomic: CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAGgtatgtgtta ... ttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCG
EST: gi|193534048|gb|FK490757.1|FK490757
EST:     CTCTTCAGAGGAAATGGAGCCAAAGAGGTTTGTGCTTGACTTGGATGAAG                         CGACAGCTCCCTNAACAAACTTAAGGGGTTT
genomic: CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAGgtatgtgtta ... ttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTT
EST: gi|17020664|gb|BM091698.1|BM091698
EST:     CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAG                         CGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCG
genomic: CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAGgtatgtgtta ... ttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCG
EST: gi|151413164|gb|EV282972.1|EV282972
EST:     CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAG                         CGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCG
genomic: CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAGgtatgtgtta ... ttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCG
EST: gi|10231744|gb|BE800632.1|BE800632
EST:     CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAG                         CGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCG
genomic: CTCTTCAGAGGAAATGGAGCCAAAGAAGTTTGTGCTTGACTTGGATGAAGgtatgtgtta ... ttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaataaaaaaggaatgtgttcgttgatattatgtttttcttgttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCGTCATTTGCCATGAGGTTGCAGCAACTTTTGATCTGGAGATTTAACTGAA
                       cgttgat  putative branch site (score: 5)
                                  tgtttttcttgtttt  putative PPT
                            atattatgtttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgttaaaacgaccttttaaggaatgtgttcgttttgctgtccaaaaaaataaaaaaggaatgtgttcgttgatattatgtttttcttgttttggctagCGACAGCTCCCTCAACAAACTTAAGGGGTTTCGGTTAAAGAGCTCAGTCCGTCATTTGCCATGAGGTTGCAGCAACTTTTGATCTGGAGATTTAACTGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT