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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cggttttcacacaaatatccttcagttttatcctattttacatttgtataccaaaattcaaaacttcaaagttattgatgcttctttatcggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCTACATTAGTTTACAAGAAAGAATGAGTAACCTGCAGGGTTGATAACTACA

Basic information

species Glycine max
transcript GLYMA03G24630.1
intron # 18
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|58018827|gb|CX705569.1|CX705569
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|58015662|gb|CX702404.1|CX702404
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|207747058|gb|GD720715.1|GD720715
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|193352023|gb|FK318810.1|FK318810
EST:     CTGAAGGATATCATGGGATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|208146124|gb|GD947935.1|GD947935
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|208301920|gb|GE099486.1|GE099486
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|208274619|gb|GE066333.1|GE066333
EST:     ATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: ATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|208120350|gb|GD918815.1|GD918815
EST:     GAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: GAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|208206252|gb|GE005389.1|GE005389
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|207772886|gb|GD743996.1|GD743996
EST:     TGAAGGATATCATGGAAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: TGAAGGATATCATGG-AATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|208163711|gb|GD963589.1|GD963589
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|13240420|gb|BG359729.1|BG359729
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|193437893|gb|FK403564.1|FK403564
EST:     TGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: TGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|17401415|gb|BM178197.1|BM178197
EST:     CTGAAGGATATCACGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|193571158|gb|FK532221.1|FK532221
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
EST: gi|192325221|gb|FK017562.1|FK017562
EST:     CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAGACTAAGCGAG                         GATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT
genomic: CTGAAGGATATCATGGAATGGATGCTCGGGAGCTGCAGAAACTAAGCGAGgcaagttatg ... ggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtataccaaaattcaaaacttcaaagttattgatgcttctttatcggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCTACATTAGTTTACAAGAAAGAATGAGTAACCTGCAGGGTTGATAACTACA
                           tattgat  putative branch site (score: 3)
       aaaattcaaaactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cggttttcacacaaatatccttcagttttatcctattttacatttgtataccaaaattcaaaacttcaaagttattgatgcttctttatcggagttgcagGATGAAATCGCGGAATATGTGCAGAATAACATGTGGAGTCCAGAGTACCCTACATTAGTTTACAAGAAAGAATGAGTAACCTGCAGGGTTGATAACTACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - -cacacaa
- - - - - - - - -tccttca
- - - - - - - - - - - - - - - - - - - - - - - - -accaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaact