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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgccaaaactgtactgttatactcttgctctttctttacctgagtcttttactatatatatctggcactcaaactgatgcacttgtgattctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCAATAATATTGATACTAATTTCTTGGTCGAAAAGTATGAAATCCTGCTACA

Basic information

species Glycine max
transcript GLYMA12G31740.1
intron # 9
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|17022905|gb|BM093939.1|BM093939
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|192306233|gb|FG996847.1|FG996847
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAA
EST: gi|192330326|gb|FK019876.1|FK019876
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|21676190|gb|BQ628541.1|BQ628541
EST:     CTTTCGCAAGNACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|151411977|gb|EV281788.1|EV281788
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|17022727|gb|BM093761.1|BM093761
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|151407416|gb|EV277231.1|EV277231
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAA-CTAAAACAGGTAGAGCTGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|51345064|gb|CO985797.1|CO985797
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|298183933|gb|HO029146.1|HO029146
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCCGGCTATACCA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCA
EST: gi|151408961|gb|EV278769.1|EV278769
EST:     CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAG                         CACCAAGAATTTGATGCAGTAAAACTAAA
genomic: CAAACGCAAGTACTCAATTGAGCGATTGCCTGAAGCAACAATTGGTGGAGgtagatactc ... ctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttactatatatatctggcactcaaactgatgcacttgtgattctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCAATAATATTGATACTAATTTCTTGGTCGAAAAGTATGAAATCCTGCTACA
                          aactgat  putative branch site (score: 3)
                                           ttctc  putative PPT
     actatatatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgccaaaactgtactgttatactcttgctctttctttacctgagtcttttactatatatatctggcactcaaactgatgcacttgtgattctcaatgcagCACCAAGAATTTGATGCAGTAAAACTAAAACAGGTAGAGCTGGCTATACCAATAATATTGATACTAATTTCTTGGTCGAAAAGTATGAAATCCTGCTACA

- ccaaaac
- - - - - - - - - - -ctcttgc
- - - - - - - - - - - - - - - - - -ttacctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cactcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgcac