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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattcaccttgggttcctaatccaggaaaaaaaatggttacaggaacaaggttgtttgacttttcattatgggtaatgttctatacatttgacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAG

Basic information

species Glycine max
transcript GLYMA17G16200.1
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|31307061|gb|CD392264.1|CD392264
EST:     GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAG                         GCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
genomic: GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAGgtaatggcta ... gacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
EST: gi|192323740|gb|FK016046.1|FK016046
EST:     GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAG                         GCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
genomic: GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAGgtaatggcta ... gacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
EST: gi|298166624|gb|HO010063.1|HO010063
EST:     GATGTTATTGTGGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAG                         GCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
genomic: GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAGgtaatggcta ... gacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
EST: gi|120529270|gb|EH257404.1|EH257404
EST:     GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAG                         GCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
genomic: GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAGgtaatggcta ... gacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTAT
EST: gi|298177779|gb|HO027332.1|HO027332
EST:     GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAG                         GCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAG
genomic: GATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAGgtaatggcta ... gacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaggttgtttgacttttcattatgggtaatgttctatacatttgacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAG
                                         atttgac  putative branch site (score: 4)
               ttttcattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattcaccttgggttcctaatccaggaaaaaaaatggttacaggaacaaggttgtttgacttttcattatgggtaatgttctatacatttgacactacagGCAAGTCTCTACAGAGGAAGGGGAAGCAAAGTCCCGAGAGCTAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - caccttg
- - - - - - gttccta
- - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -ttgtttg