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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgggtttctttatgattctaattctaattcatgttggggtcaactgatttgcactgtgagtttgactctttgtgcagcttcttttgatttgtg...

Basic information

species Glycine max
transcript GLYMA04G39250.1
intron # 3
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|26268298|gb|CA819361.1|CA819361
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|298187006|gb|HO034155.1|HO034155
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCAAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|192311623|gb|FK003106.1|FK003106
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|192310244|gb|FK002600.1|FK002600
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|192310245|gb|FK002601.1|FK002601
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|192311622|gb|FK003105.1|FK003105
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|20814760|gb|BQ299238.1|BQ299238
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCAAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|7587908|gb|AW703714.1|AW703714
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|298174461|gb|HO014606.1|HO014606
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCAAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|23064422|gb|BU579195.1|BU579195
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCTAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|298189819|gb|HO038222.1|HO038222
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCAAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|14009072|gb|BG725667.1|BG725667
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
EST: gi|16343728|gb|BI969323.1|BI969323
EST:     CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG                         GGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT
genomic: CGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgg ... attattttagGGATCCCAACATGCTGCGAGACGTGCTGCTAGTTTTGTGCGAGGAGATGAT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAGgtgtgtatgggtttctttatgattctaattctaattcatgttggggtcaactgatttgcactgtgagtttgactctttgtgcagcttcttttgatttgtg

- - AAGAGA
- - - GAGATC
- - -  AGATCA
- - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgggg