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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcatatgcatgcttcgttgaatttttgctactggcgtgatagataattcttgaaatgttccgttgtttaactgtggtttgtggacattatggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTGGTGTCCATGTGATTATGGGTGTGAGAAATATGCTTGCTGCTAAAGATGT

Basic information

species Glycine max
transcript GLYMA20G30080.2
intron # 1
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|15204724|gb|BI427492.1|BI427492
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
EST: gi|151398063|gb|EV267941.1|EV267941
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
EST: gi|192319093|gb|FK010629.1|FK010629
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
EST: gi|209715120|gb|BW677163.1|BW677163
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
EST: gi|151394515|gb|EV264386.1|EV264386
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGCTCTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
EST: gi|17964274|gb|BM271012.1|BM271012
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
EST: gi|7692065|gb|AW760180.1|AW760180
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG
EST: gi|5058402|gb|AI736934.1|AI736934
EST:     GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAG                         GGGCATCCAGTGGTATTGGCACTGAGACTACCCGTGTTTTTGCTTTGCGTG
genomic: GCAAGTCACTGAAGGAATTGATGGAACTGGTTTCACTGCCATTGTCACAGgttaatgatt ... atggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattcttgaaatgttccgttgtttaactgtggtttgtggacattatggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTGGTGTCCATGTGATTATGGGTGTGAGAAATATGCTTGCTGCTAAAGATGT
                     gtttaac  putative branch site (score: 3)
                   ttgtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgcatatgcatgcttcgttgaatttttgctactggcgtgatagataattcttgaaatgttccgttgtttaactgtggtttgtggacattatggtaacagGGGCATCCAGTGGTATTGGCACTGAGACTACGCGTGTTCTTGCTTTGCGTGGTGTCCATGTGATTATGGGTGTGAGAAATATGCTTGCTGCTAAAGATGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
-tgcatat
- - - - gcatgct
- - - - - - - - - - - - - -tgctact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtggac