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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtaaatgttgcatttaaggatgttattttcttcatttcattttatattgtcttattatttgtttaaccaatggtttactcgcacacatttataactactgtaGGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGGAGGCGATACAATTTCAAATCAAGCCAGAAGAGAAGCTATCATAGATGGT

Basic information

species Glycine max
transcript GLYMA18G47860.1
intron # 8
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|9901175|gb|BE610143.1|BE610143
EST:     TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAA                         GGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGG
genomic: TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAAggtaaatgtt ... aactactgtaGGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGG
EST: gi|208253217|gb|GE054705.1|GE054705
EST:     TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAA                         GGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCT
genomic: TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAAggtaaatgtt ... aactactgtaGGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCT
EST: gi|208030395|gb|GD828853.1|GD828853
EST:     TGTGGTGTTCATATAAATGCTGGTGCTGAGATTGGTGTGGCAAGTACCAA                         GGCATACACAAGT
genomic: TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAAggtaaatgtt ... aactactgtaGGCATACACAAGT
EST: gi|6454585|gb|AW185268.1|AW185268
EST:     TGTGGTGTTCATATAAATGCTGGTGCTGAGATTGGTGTGGCAAGTACCAA                         GGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGG
genomic: TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAAggtaaatgtt ... aactactgtaGGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGG
EST: gi|151408304|gb|EV278112.1|EV278112
EST:     TGTGGTGTTCATATAAATGCTGGTGCTGAGATTGGTGTGGCAAGTACCAA                         GGCATATACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGG
genomic: TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAAggtaaatgtt ... aactactgtaGGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGG
EST: gi|193471255|gb|FK438148.1|FK438148
EST:     TGTGGTGTTCATATAAATGCTGGTGCTGAGATTGGTGTGGCAAGTACCAA                         GGCATATACAAGT
genomic: TGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAAggtaaatgtt ... aactactgtaGGCATACACAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcttattatttgtttaaccaatggtttactcgcacacatttataactactgtaGGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGGAGGCGATACAATTTCAAATCAAGCCAGAAGAGAAGCTATCATAGATGGT
                                         ttataac  putative branch site (score: 2)
     tattatttgtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtaaatgttgcatttaaggatgttattttcttcatttcattttatattgtcttattatttgtttaaccaatggtttactcgcacacatttataactactgtaGGCATACACAAGTCAAATAGTAGTGATGGTCATGTTAGCTCTTGCAATAGGAGGCGATACAATTTCAAATCAAGCCAGAAGAGAAGCTATCATAGATGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC