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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattagcatgtactgcagacttttaatttgaagaatacttgtgcttttgaattagatatatataatggcactctaatatcattttattttatggcagaagTACCAGGAAGAAACAAACAATGTTTCTCAAAGTCCAGCTGCACTGGAATGTCATCATCGCTGCTGAAAATCTGCAACCGGAAGGTCTGATGCTTCATAGG

Basic information

species Glycine max
transcript GLYMA20G34690.3
intron # 1
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|298178607|gb|HO024342.1|HO024342
EST:     GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|254321705|gb|GR825022.1|GR825022
EST:     CTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: CTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|21888085|gb|BQ741298.1|BQ741298
EST:     CTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: CTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|15000692|gb|BI321506.1|BI321506
EST:     CTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: CTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|298170143|gb|HO018767.1|HO018767
EST:     GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|192306809|gb|FK002979.1|FK002979
EST:     GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|298191473|gb|HO038952.1|HO038952
EST:     TCGCTACTCATCATCCTAAGAAG                       
genomic: TCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|298167435|gb|HO012698.1|HO012698
EST:     GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: GACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga
EST: gi|192325180|gb|FK019096.1|FK019096
EST:     ACTGACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCTAAGAAG                       
genomic: ACTGACTCACTCTTGTTTTCGCTTCGCTACTCATCATCCT---AAGgtaatgcctc ... atggcaga


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgaattagatatatataatggcactctaatatcattttattttatggcagaagTACCAGGAAGAAACAAACAATGTTTCTCAAAGTCCAGCTGCACTGGAATGTCATCATCGCTGCTGAAAATCTGCAACCGGAAGGTCTGATGCTTCATAGG
                         ctctaat  putative branch site (score: 3)
                        actctaatatcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattagcatgtactgcagacttttaatttgaagaatacttgtgcttttgaattagatatatataatggcactctaatatcattttattttatggcagaagTACCAGGAAGAAACAAACAATGTTTCTCAAAGTCCAGCTGCACTGGAATGTCATCATCGCTGCTGAAAATCTGCAACCGGAAGGTCTGATGCTTCATAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - -gcatgta
- - - - - - -tgcagac
- - - - - - - - - - - - - - - - - - -cttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcactct