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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaataaataacttgatatggtgaagctgggttctcgcagttatttgtttttttgttactggagtatgtttaacggattggttgttttgtggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAACGACGATTATGAAACACTTCTCAATGAGGAACTTCAAATTGAGTTCAGTG

Basic information

species Glycine max
transcript GLYMA04G41530.1
intron # 2
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|298188556|gb|HO035249.1|HO035249
EST:     CTGCCACTGGAATTATCGTTTTCAGTGCCTTTTATGATAGACTCAAAGAG                         ATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
genomic: CTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAGgtagctcatt ... ggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
EST: gi|193383892|gb|FK353089.1|FK353089
EST:     CTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAG                         ATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
genomic: CTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAGgtagctcatt ... ggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
EST: gi|193642911|gb|FK592881.1|FK592881
EST:     TAGACTCAAAGAG                         ATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
genomic: TAGACTCAAAGAGgtagctcatt ... ggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
EST: gi|209711675|gb|BW674038.1|BW674038
EST:     CTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAG                         ATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
genomic: CTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAGgtagctcatt ... ggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
EST: gi|298186629|gb|HO037262.1|HO037262
EST:     CTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAG                         ATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
genomic: CTGCCACTGGAATTAACGTTTTCAGTGCCTTTTATGATAGACTCAAAGAGgtagctcatt ... ggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
EST: gi|193549057|gb|FK505408.1|FK505408
EST:     TAGACTCAAAGAG                         ATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC
genomic: TAGACTCAAAGAGgtagctcatt ... ggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttttgttactggagtatgtttaacggattggttgttttgtggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAACGACGATTATGAAACACTTCTCAATGAGGAACTTCAAATTGAGTTCAGTG
                      gtttaac  putative branch site (score: 3)
                   tatgtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaataaataacttgatatggtgaagctgggttctcgcagttatttgtttttttgttactggagtatgtttaacggattggttgttttgtggtataacagATACGAGAGTATCATAGGAAGCACCCAGTTGCTCGTGTTGTTGACGCCAACGACGATTATGAAACACTTCTCAATGAGGAACTTCAAATTGAGTTCAGTG

aaaataa
- - - - - - -tgatatg
- - - - - - - - - - - gaagctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttttg