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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgcatttaaggaatgctagtattgatattcaagatcatctaggatgtttattggtttgtaggttaattagattggtatgatatctatctgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTGAAATGGGCAAACAAAACATGGGAGATTCTGTCTTCTGCCAAACTTCCCT

Basic information

species Glycine max
transcript GLYMA20G02570.1
intron # 7
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|9987734|gb|BE661842.1|BE661842
EST:     CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATA                         GTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
genomic: CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATAgtgagttacc ... tgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
EST: gi|298188362|gb|HO035055.1|HO035055
EST:     CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACACA                         GTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
genomic: CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATAgtgagttacc ... tgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
EST: gi|192295612|gb|FG990466.1|FG990466
EST:     CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATA                         GTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
genomic: CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATAgtgagttacc ... tgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
EST: gi|151403392|gb|EV273202.1|EV273202
EST:     CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATA                         GTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
genomic: CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATAgtgagttacc ... tgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
EST: gi|209710530|gb|BW662066.1|BW662066
EST:     CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATA                         GTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG
genomic: CACCATGTGATAGCATCAAGGTTTTGGAGCAAGCTCTTGTAAATAACATAgtgagttacc ... tgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttattggtttgtaggttaattagattggtatgatatctatctgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTGAAATGGGCAAACAAAACATGGGAGATTCTGTCTTCTGCCAAACTTCCCT
                 ggttaat  putative branch site (score: 4)
                                       tctatct  putative PPT
                   ttaattagatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgcatttaaggaatgctagtattgatattcaagatcatctaggatgtttattggtttgtaggttaattagattggtatgatatctatctgtgatccagGTTAATTATAATGGCGAGGATTTGCCCCTGCCTTTCAACTTTGAGATCCTGAAATGGGCAAACAAAACATGGGAGATTCTGTCTTCTGCCAAACTTCCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- tgcattt
- - - - - - gaatgct
- - - - - - - - - - - - - - - - - - - - - -ggatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtatga