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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcattatctgttatttgttttctgtatttttccaacttccattccacttacaagaattaggcctgattgcttgagtgaaaggatcattgttgtttattacttctacttttttctttacagGGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG

Basic information

species Glycine max
transcript GLYMA06G13210.3
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|151394500|gb|EV264371.1|EV264371
EST:     CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTG                         GGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
genomic: CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTGgtcattatct ... ttctttacagGGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
EST: gi|208279087|gb|GE079188.1|GE079188
EST:     CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTG                         GGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
genomic: CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTGgtcattatct ... ttctttacagGGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
EST: gi|151410847|gb|EV280662.1|EV280662
EST:     CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTG                         GGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
genomic: CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTGgtcattatct ... ttctttacagGGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
EST: gi|192325742|gb|FK015099.1|FK015099
EST:     CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTG                         GGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
genomic: CCATTCTACTGTTGTTTCTGGGTGGTTCTCAGCTTCTCAAACTTGCTCTGgtcattatct ... ttctttacagGGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcttgagtgaaaggatcattgttgtttattacttctacttttttctttacagGGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG
 gcctgat  putative branch site (score: 4)
                        ttgtttattacttcta  putative PPT
                    attgttgtttatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcattatctgttatttgttttctgtatttttccaacttccattccacttacaagaattaggcctgattgcttgagtgaaaggatcattgttgtttattacttctacttttttctttacagGGAAATCTGGGAAAGCTGTTTATTTCAACAACCCAATGTGGCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT