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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccattttttttttaataaattagttaattctctctgctttggctgaacaactgttgtattcatattgattggttgtgtggtgttttaattttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGCTTCATTTGAGGATCCACTTATGTGTGCCCACGG

Basic information

species Glycine max
transcript GLYMA20G33580.1
intron # 2
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|298185401|gb|HO030614.1|HO030614
EST:     GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
EST: gi|120491293|gb|EH219460.1|EH219460
EST:     GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
EST: gi|192302698|gb|FG993718.1|FG993718
EST:     GCCGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
EST: gi|8827104|gb|BE210834.1|BE210834
EST:     GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
EST: gi|298163106|gb|HO011839.1|HO011839
EST:     GCTGCAAACAGGCGCTACGCTGATCCCATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
EST: gi|120491336|gb|EH219503.1|EH219503
EST:     GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
EST: gi|151400704|gb|EV270518.1|EV270518
EST:     GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
EST: gi|192302195|gb|FG997275.1|FG997275
EST:     GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCT                         GTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC
genomic: GCTGCAAACAAGCGCTACGCTGATCACATAATTCCTCATATTCTGCATCTgtaaccattt ... ttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacaactgttgtattcatattgattggttgtgtggtgttttaattttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGCTTCATTTGAGGATCCACTTATGTGTGCCCACGG
                                           ttttaat  putative branch site (score: 3)
                                   tgttttaattttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaccattttttttttaataaattagttaattctctctgctttggctgaacaactgttgtattcatattgattggttgtgtggtgttttaattttaatttcagGTATGGATCATCTGCAACCTCTCGCGACTTTGAAATCTATGCCGCAAATGCTTCATTTGAGGATCCACTTATGTGTGCCCACGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT