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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggctctatctctagttaggtttatttcttatttccaattatgcattcccttcaattatatttccttatttgatagtttcttataaataataattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAAATTCAAAGGACACCCACAAAAAGTGAAACTCCTAATGTTTCTGAAGTGA

Basic information

species Glycine max
transcript GLYMA10G24350.2
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|58016033|gb|CX702775.1|CX702775
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|151403344|gb|EV273154.1|EV273154
EST:     CAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: CAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|208075968|gb|GD873385.1|GD873385
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAA-GAAGTTATAG
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAG
EST: gi|58023144|gb|CX709885.1|CX709885
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|23052917|gb|BU577408.1|BU577408
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|7691074|gb|AW759208.1|AW759208
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAGAATAAG                         GAACGGTTGGAAGCCAAAAATGTGTTGTCTTCAAAAGAAGTTATAGAAAGA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAA-GA
EST: gi|13790409|gb|BG653000.1|BG653000
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|8282401|gb|BE019962.1|BE019962
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|192320514|gb|FK011924.1|FK011924
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|16106162|gb|BI893902.1|BI893902
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|192308052|gb|FG999035.1|FG999035
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAA-TAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAA-GAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|213595893|gb|DB966252.1|DB966252
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAA
EST: gi|214008290|gb|DB989832.1|DB989832
EST:     TAGATTTCAAGAAAGTGAAAACTAAG                         GAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
genomic: TAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA
EST: gi|16344759|gb|BI970354.1|BI970354
EST:     ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGNNNNTGAAAAATAAG                         GAACGGTTGGAAGCCAAAAATTTGNNNTCTTCAAAAGAAGTTATAGAAGAA
genomic: ACAAGCTGAAATCCCTACGGGTGTTAGATTTCAAGAAAGTGAAAAATAAGgtaatgttct ... taattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcccttcaattatatttccttatttgatagtttcttataaataataattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAAATTCAAAGGACACCCACAAAAAGTGAAACTCCTAATGTTTCTGAAGTGA
                      atttgat  putative branch site (score: 5)
        aattatatttccttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggctctatctctagttaggtttatttcttatttccaattatgcattcccttcaattatatttccttatttgatagtttcttataaataataattaatagGAACGGTTGGAAGCCAAAAATTTGTTTTCTTCAAAAGAAGTTATAGAAGAAATTCAAAGGACACCCACAAAAAGTGAAACTCCTAATGTTTCTGAAGTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - -tatgcat
- - - - - - - - - - - - - - - - - - - - - - - tcccttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaataa