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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaggaaattatatatcattctttttctaatttctcaacagaccaggcttatttcacatcttctcgctgcccatttaatcatgtgtgttatgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAACATTCTACTTGATTTTTCTGGAGGAATAGCAAATTATGGACAGATGGTTG

Basic information

species Glycine max
transcript GLYMA16G07110.1
intron # 5
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|192294741|gb|FG986590.1|FG986590
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|254347046|gb|GR856716.1|GR856716
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|192313595|gb|FK005591.1|FK005591
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|254327243|gb|GR836852.1|GR836852
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|192306920|gb|FG999953.1|FG999953
EST:     ACACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACGGATGGCTTCAGCATCGGTAAC
genomic: ACACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|254327242|gb|GR836851.1|GR836851
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|151401800|gb|EV271613.1|EV271613
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAATAAGTACTGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|192306919|gb|FG999952.1|FG999952
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACGGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|7327013|gb|AW620811.1|AW620811
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTGCTGAGAAAGAGTACTGATGGCTTCAGCATCGGTTAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
EST: gi|192313596|gb|FK005592.1|FK005592
EST:     CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAG                         GCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC
genomic: CACAATTCAAGTAGTTATGACTACTATAAAGTACATTCCTCAGgttgggaatt ... atgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggcttatttcacatcttctcgctgcccatttaatcatgtgtgttatgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAACATTCTACTTGATTTTTCTGGAGGAATAGCAAATTATGGACAGATGGTTG
                            atttaat  putative branch site (score: 4)
                            atttaatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaggaaattatatatcattctttttctaatttctcaacagaccaggcttatttcacatcttctcgctgcccatttaatcatgtgtgttatgaatgtagGCAGTCATGAACTTCCTGAGAAAAAGTACTGATGGCTTCAGCATCGGTAACATTCTACTTGATTTTTCTGGAGGAATAGCAAATTATGGACAGATGGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG