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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttataaattcaaaagtattaattactgcatagctagctagtttctttgaattgacctgggaaaataatttatcacaacgtaaatgaattacacggttattatattttatttacataaaccgtgggttggatttatgagatgttaatgataacgataataataataataataattttgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAGGTACCAAGACAGTTCCTTGATATAGGTCCCAGTGGCACAGCAGAAGTAG

Basic information

species Glycine max
transcript GLYMA15G11680.1
intron # 3
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|19052667|gb|BM731334.1|BM731334
EST:     TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAG                         GTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
genomic: TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAGgtagttataa ... tgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
EST: gi|254334382|gb|GR844167.1|GR844167
EST:     TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAG                         GTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
genomic: TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAGgtagttataa ... tgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
EST: gi|15285166|gb|BI469057.1|BI469057
EST:     CGGAAAATGAG                         GTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
genomic: CGGAAAATGAGgtagttataa ... tgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
EST: gi|254346516|gb|GR856238.1|GR856238
EST:     TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAG                         GTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
genomic: TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAGgtagttataa ... tgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
EST: gi|17400985|gb|BM177767.1|BM177767
EST:     TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAG                         GTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
genomic: TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAGgtagttataa ... tgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
EST: gi|254327037|gb|GR836646.1|GR836646
EST:     TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAG                         GTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
genomic: TCACATTAATGCAACAGAACCAGCAGCGAACAGGAAGCACGGAAAATGAGgtagttataa ... tgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
EST: gi|254322703|gb|GR835525.1|GR835525
EST:     GAACCAGCAGCGAACAGGAAGCACGGAAAATGAG                         GTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG
genomic: GAACCAGCAGCGAACAGGAAGCACGGAAAATGAGgtagttataa ... tgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatgagatgttaatgataacgataataataataataataattttgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAGGTACCAAGACAGTTCCTTGATATAGGTCCCAGTGGCACAGCAGAAGTAG
               tgataac  putative branch site (score: 2)
           ttaatgataacgataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagttataaattcaaaagtattaattactgcatagctagctagtttctttgaattgacctgggaaaataatttatcacaacgtaaatgaattacacggttattatattttatttacataaaccgtgggttggatttatgagatgttaatgataacgataataataataataataattttgaaattcagGTTGTTCAGGGAAAGGTAGAGGATAAAAACGTTGGTGTTGGTGGAGGGAAGGTACCAAGACAGTTCCTTGATATAGGTCCCAGTGGCACAGCAGAAGTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT