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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGAGCGTGCGAAGAGGGTGGGGAGAAGATTTAGTGTTGTGGCCATGGCGGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctttttggtttttggtttgatgggtttgctttggattcttgtttttctgtcttgggatgtagagagttttgattttggacccgaaaatgacgt...

Basic information

species Glycine max
transcript GLYMA18G39930.2
intron # 1
splice site 5'
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|193450072|gb|FK415608.1|FK415608
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208250912|gb|GE047291.1|GE047291
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|151397652|gb|EV267525.1|EV267525
EST:     GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAACCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208266217|gb|GE065434.1|GE065434
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193526092|gb|FK481541.1|FK481541
EST:     GTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208333442|gb|GE126207.1|GE126207
EST:     AAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: AAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|58019388|gb|CX706130.1|CX706130
EST:     TGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: TGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|298174286|gb|HO017622.1|HO017622
EST:     GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|213620500|gb|DB957344.1|DB957344
EST:     GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193340963|gb|FK306344.1|FK306344
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208300259|gb|GE097294.1|GE097294
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTAC
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTAC
EST: gi|193577933|gb|FK533779.1|FK533779
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTT
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTT
EST: gi|208030116|gb|GD831598.1|GD831598
EST:     AAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: AAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208162540|gb|GD964755.1|GD964755
EST:     GTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|58016336|gb|CX703078.1|CX703078
EST:     GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208085081|gb|GD883183.1|GD883183
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208282481|gb|GE076911.1|GE076911
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATT-AAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|17023106|gb|BM094140.1|BM094140
EST:     GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208146997|gb|GD950614.1|GD950614
EST:     AAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: AAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208164195|gb|GD962407.1|GD962407
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193321356|gb|FK283658.1|FK283658
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208169818|gb|GD973099.1|GD973099
EST:     GG-GTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTAACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCT
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTT-ACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCT
EST: gi|192327079|gb|FK015471.1|FK015471
EST:     GTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193318902|gb|FK283414.1|FK283414
EST:     GGGGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|207790818|gb|GD759603.1|GD759603
EST:     GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctt ... tgcttttcagGACAAATAGTTTACAAAAAATTAAAAGAGAGGCCAAACCAATATGTGGCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGAGCGTGCGAAGAGGGTGGGGAGAAGATTTAGTGTTGTGGCCATGGCGGAGTCTGAGAAGAGTACTGTGCTTGTTACGGGAGCCGGTGGTCGCACAGgttaggcctttttggtttttggtttgatgggtttgctttggattcttgtttttctgtcttgggatgtagagagttttgattttggacccgaaaatgacgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatga