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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtttttaccatgacaattcctttacgttaatgtgcatttggatcacaatagttgacatttagtttatttatccttacaaagttacctgcccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTGTACAACTCATCTG

Basic information

species Glycine max
transcript GLYMA19G35370.1
intron # 13
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|151398183|gb|EV268061.1|EV268061
EST:     CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAG                         GTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
genomic: CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAGgttattcatt ... ccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
EST: gi|22928249|gb|BU545388.1|BU545388
EST:     CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAG                         GTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
genomic: CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAGgttattcatt ... ccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
EST: gi|207737038|gb|GD711881.1|GD711881
EST:     CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAG                         GTTTAGACAAATGATTGGACATGTAATTCAAAGAATCTGCTTCA
genomic: CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAGgttattcatt ... ccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGA-TCTGCTTCA
EST: gi|193557128|gb|FK512771.1|FK512771
EST:     CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAG                         GTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGTCTTCACATCACT
genomic: CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAGgttattcatt ... ccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTG-CTTCACATCACT
EST: gi|15203207|gb|BI425975.1|BI425975
EST:     CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAG                         GTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
genomic: CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAGgttattcatt ... ccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
EST: gi|21676372|gb|BQ628723.1|BQ628723
EST:     CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAG                         GTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
genomic: CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAGgttattcatt ... ccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
EST: gi|16348103|gb|BI973698.1|BI973698
EST:     CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAG                         GTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG
genomic: CCAAGTTACTTTCCTGAGGAGACCATCGTTGGAGTCAGTCAGTGAGCAAGgttattcatt ... ccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatagttgacatttagtttatttatccttacaaagttacctgcccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTGTACAACTCATCTG
                          tccttac  putative branch site (score: 2)
                                        cctgccc  putative PPT
          acatttagtttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtttttaccatgacaattcctttacgttaatgtgcatttggatcacaatagttgacatttagtttatttatccttacaaagttacctgcccaattgtagGTTTAGACAAATGATTGGACATGTAATTCAAAGATCTGCTTCACATCACTGTACAACTCATCTG

- - - - -catgaca
- - - - - - - - - - - - - - - - -tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacctgc