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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcattgtatttccaaatttatgagttctgagttatgttttaaaattgtgttatatacttattctatcaatttctgatttttggttatatatccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCTCAGTTGAAACAGAGATCAACAGGTTTAAACAGTGGTGACAAAGGGATTC

Basic information

species Glycine max
transcript GLYMA16G05600.1
intron # 3
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|207694695|gb|GD676554.1|GD676554
EST:     ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAA                         ACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
genomic: ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAAgtaagatttg ... atccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
EST: gi|10236779|gb|BE805667.1|BE805667
EST:     ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAA                         ACATTCTTGCGCCAGAAAGTTACTCTTGAATTGACTGGCTCTACT
genomic: ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAAgtaagatttg ... atccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACT
EST: gi|208095431|gb|GD896627.1|GD896627
EST:     CACTTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAA                         ACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
genomic: CACTTT-CTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAAgtaagatttg ... atccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
EST: gi|192312930|gb|FK005486.1|FK005486
EST:     ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGATTGGTACCAAA                         ACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
genomic: ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAAgtaagatttg ... atccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
EST: gi|10236805|gb|BE805693.1|BE805693
EST:     ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAA                         ACATTCTTGCGCCAGAAAGTCACTCTTGAATTGACTGGCTCTACTTCCCCT
genomic: ACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAAgtaagatttg ... atccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
EST: gi|193477085|gb|FK439582.1|FK439582
EST:     TTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACC-AA                         ACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
genomic: TTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAAgtaagatttg ... atccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCT
EST: gi|208117929|gb|GD915077.1|GD915077
EST:     CACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTAACCAAA                         ACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCC
genomic: CACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTA-CCAAAgtaagatttg ... atccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgttatatacttattctatcaatttctgatttttggttatatatccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCTCAGTTGAAACAGAGATCAACAGGTTTAAACAGTGGTGACAAAGGGATTC
                          ttctgat  putative branch site (score: 3)
     ttatatacttattcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcattgtatttccaaatttatgagttctgagttatgttttaaaattgtgttatatacttattctatcaatttctgatttttggttatatatccacacagACATTCTTGCGCCAGAAAGTCACTCTTGAATCGACTGGCTCTACTTCCCCTCAGTTGAAACAGAGATCAACAGGTTTAAACAGTGGTGACAAAGGGATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
tgcattg
- - - - - - ccaaatt
- - - - - - - - - - - - - -ctgagtt