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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgtaatattggtttcctctgtcagttttttcaaagctgctgatgtgattgtgtcatttctgaaagtcattgggtaatattttttctaaaatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGATGTGATGCTCCCTGAACCAGTCAGAATCTCACATCCTAGCTGCCAATTTT

Basic information

species Glycine max
transcript GLYMA20G31210.2
intron # 4
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|7686043|gb|AW756691.1|AW756691
EST:     AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAG                         GTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
genomic: AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAGgtctgtgatc ... aatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
EST: gi|207760404|gb|GD731375.1|GD731375
EST:     AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTCTCCTCAG                         GTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
genomic: AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAGgtctgtgatc ... aatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
EST: gi|9901193|gb|BE610161.1|BE610161
EST:     ATGTGAATGGCTATCCTGACTTTCCTCAG                         GTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
genomic: ATGTGAATGGCTATCCTGACTTTCCTCAGgtctgtgatc ... aatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
EST: gi|254324747|gb|GR834172.1|GR834172
EST:     AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAG                         GTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
genomic: AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAGgtctgtgatc ... aatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
EST: gi|254339826|gb|GR857951.1|GR857951
EST:     AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAG                         GTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
genomic: AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAGgtctgtgatc ... aatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
EST: gi|18040517|gb|BM308811.1|BM308811
EST:     AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAG                         GTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
genomic: AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAGgtctgtgatc ... aatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
EST: gi|208171169|gb|GD973134.1|GD973134
EST:     AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAG                         GTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT
genomic: AGCTTGTCCTAGATCAGCAGCATGTGAATGGCTATCCTGACTTTCCTCAGgtctgtgatc ... aatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgattgtgtcatttctgaaagtcattgggtaatattttttctaaaatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGATGTGATGCTCCCTGAACCAGTCAGAATCTCACATCCTAGCTGCCAATTTT
                                       ttctaaa  putative branch site (score: 2)
                              taatattttttctaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attgtaatattggtttcctctgtcagttttttcaaagctgctgatgtgattgtgtcatttctgaaagtcattgggtaatattttttctaaaatcgtgtagGTTGTTAGTGAAGAAACACAAAGTACTGTTGTGGATCAGTTCTCTGAGGATGTGATGCTCCCTGAACCAGTCAGAATCTCACATCCTAGCTGCCAATTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC