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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtctattgtttgcattgctaatttgttttattttttttggtatttttttagtgattatctgttatgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTCAAATCCTAGAAAGAAACAGAAGAGAGATGTGCCCAGTCTCACTTGCAAC

Basic information

species Glycine max
transcript GLYMA11G02580.1
intron # 31
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|27424976|gb|CA936496.1|CA936496
EST:     TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAG                         ATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC
genomic: TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAGgtcagtctat ... tgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC
EST: gi|31465210|gb|CD407238.1|CD407238
EST:     CTTCAAACCATGACAG                         ATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC
genomic: CTTCAAACCATGACAGgtcagtctat ... tgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC
EST: gi|193537431|gb|FK495866.1|FK495866
EST:     TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAG                         ATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTC
genomic: TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAGgtcagtctat ... tgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTC
EST: gi|22930748|gb|BU547887.1|BU547887
EST:     TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAG                         ATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC
genomic: TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAGgtcagtctat ... tgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC
EST: gi|208280857|gb|GE077191.1|GE077191
EST:     TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAG                         ATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC
genomic: TGTCCTGCATGTAACCCGTGTACAGAAGGATTGCCTTCAAACCATGACAGgtcagtctat ... tgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttgttttattttttttggtatttttttagtgattatctgttatgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTCAAATCCTAGAAAGAAACAGAAGAGAGATGTGCCCAGTCTCACTTGCAAC
 tgctaat  putative branch site (score: 2)
      ttttattttttttggt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtctattgtttgcattgctaatttgttttattttttttggtatttttttagtgattatctgttatgctttgcagATTAACTAGTGGTAAATTTGAGGAGCCTAAAACCCCATCTCCGAGGCATTCAAATCCTAGAAAGAAACAGAAGAGAGATGTGCCCAGTCTCACTTGCAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG