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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatggaaggactatgattgtggtttgaatcccataaaagattttattagtgttatgcttctattaaccactgatgcatctaactgcgtgattttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGCATCCTCTCCGGTTTTGAATTTGATTCCTCCTCCATTAGCTTGTTTTTAA

Basic information

species Glycine max
transcript GLYMA19G18340.1
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|57575654|gb|CX548629.1|CX548629
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|254316869|gb|GR828406.1|GR828406
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|17518794|gb|BM187836.1|BM187836
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|151396560|gb|EV266437.1|EV266437
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|298172811|gb|HO019795.1|HO019795
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAA
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAA
EST: gi|21675161|gb|BQ627512.1|BQ627512
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|58014794|gb|CX701536.1|CX701536
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|6567025|gb|AW234652.1|AW234652
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|58024651|gb|CX711392.1|CX711392
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGC
EST: gi|9204922|gb|BE331146.1|BE331146
EST:     GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACT                         ATTTTAATTCAAGGAATGCCTCTAGCA
genomic: GTTAATCTTCACCAATGGGACCAAGTAAAACCATATGACGGAAAAACTgtcagtacag ... attttttcagATTTTAATTCAAGGAATGCCTCGAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attagtgttatgcttctattaaccactgatgcatctaactgcgtgattttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGCATCCTCTCCGGTTTTGAATTTGATTCCTCCTCCATTAGCTTGTTTTTAA
                                              ttttttc  CT-rich tract
             ttctattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctatggaaggactatgattgtggtttgaatcccataaaagattttattagtgttatgcttctattaaccactgatgcatctaactgcgtgattttttcagATTTTAATTCAAGGAATGCCTCGAGCAGGTACATATGAAGATATAGGACGCATCCTCTCCGGTTTTGAATTTGATTCCTCCTCCATTAGCTTGTTTTTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC