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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgattagcataactataatggtatttaaaattttcatttttggccaaactttttaagatttcaattattttttaataatgatactattgttcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAATTACATGGCAGGATGGTTACCATAGTTTGCGTTTCCTGCATAAGATCCA

Basic information

species Glycine max
transcript GLYMA05G28140.2
intron # 7
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|208238790|gb|GE039094.1|GE039094
EST:     GCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: GCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
EST: gi|193469405|gb|FK437655.1|FK437655
EST:     GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
EST: gi|193350282|gb|FK318280.1|FK318280
EST:     ACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: ACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
EST: gi|193357318|gb|FK323202.1|FK323202
EST:     GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
EST: gi|208258785|gb|GE057122.1|GE057122
EST:     GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
EST: gi|193314540|gb|FK279291.1|FK279291
EST:     GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
EST: gi|193578459|gb|FK534767.1|FK534767
EST:     GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
EST: gi|207776504|gb|GD747417.1|GD747417
EST:     GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGG                         GTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA
genomic: GGTGAAGCCCTCTTTCAACAAATGGAGTGTGAGCCAACGTTACAAATTGGgtatgcactc ... tcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactttttaagatttcaattattttttaataatgatactattgttcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAATTACATGGCAGGATGGTTACCATAGTTTGCGTTTCCTGCATAAGATCCA
                        ttttaat  putative branch site (score: 3)
     ttttaagatttcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgattagcataactataatggtatttaaaattttcatttttggccaaactttttaagatttcaattattttttaataatgatactattgttcaagtgcagGTATCAGCCTGATCCAGTATCAGTGGTGACAGCAGGCCCAAGCATGAGCAATTACATGGCAGGATGGTTACCATAGTTTGCGTTTCCTGCATAAGATCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG