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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttataaattccaagtattaataattactgcctggtttctttgaattgactttcttttcatttataacagcataaacggtgggttaaatttatgagatgttaataatgataatgttgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAGGTACCAAGGCAATTCCTTGATATAGGTCCCAGTGGCACAGCAGAAGTAG

Basic information

species Glycine max
transcript GLYMA09G00820.1
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|15814711|gb|BI786986.1|BI786986
EST:     TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGG                         GTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG
genomic: TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGGgtacttataa ... tgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG
EST: gi|21993769|gb|BQ785297.1|BQ785297
EST:     TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGG                         GTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG
genomic: TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGGgtacttataa ... tgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG
EST: gi|209698051|gb|BW680372.1|BW680372
EST:     TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGG                         GTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGA
genomic: TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGGgtacttataa ... tgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGA
EST: gi|14990745|gb|BI316418.1|BI316418
EST:     TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGG                         GTTGCTCATGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGA
genomic: TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGGgtacttataa ... tgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGA
EST: gi|213614601|gb|DB969531.1|DB969531
EST:     TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGG                         GTTGCTCAGGGAAAGGTTGAGGA
genomic: TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGGgtacttataa ... tgaaattcagGTTGCTCAGGGAAAGGTTGAGGA
EST: gi|17964331|gb|BM271068.1|BM271068
EST:     TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGG                         GTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG
genomic: TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGGgtacttataa ... tgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG
EST: gi|14205880|gb|BG839558.1|BG839558
EST:     TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGG                         GTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG
genomic: TGACACTAATGCAACAGAACCAGCAGCGAACAGAAAGCACGGAAAATGGGgtacttataa ... tgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataaacggtgggttaaatttatgagatgttaataatgataatgttgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAGGTACCAAGGCAATTCCTTGATATAGGTCCCAGTGGCACAGCAGAAGTAG
                           tgttaat  putative branch site (score: 3)
             ttaaatttatgagatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttataaattccaagtattaataattactgcctggtttctttgaattgactttcttttcatttataacagcataaacggtgggttaaatttatgagatgttaataatgataatgttgaaattcagGTTGCTCAGGGAAAGGTTGAGGATAAAAACCATGGTGTTGGTGGAGGAAAGGTACCAAGGCAATTCCTTGATATAGGTCCCAGTGGCACAGCAGAAGTAG

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