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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcatgttgaactaagtattgttttgctccattctttactttttgaagatttggtgctgtctgtgattggtttgtaaaatatattctgcttagcatatagTTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTGTGAGATCTGCTTCAACATTCAGAAATTGGATTTCGAGGGACCCGAATTC

Basic information

species Glycine max
transcript GLYMA20G02490.3
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|151396239|gb|EV266116.1|EV266116
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAG                         TTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGgtatttttct ... tagcatatagTTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
EST: gi|4260299|gb|AI416795.1|AI416795
EST:     AAAGCACTTTTCCTCCCTCTGAGTTTTGCTACAACTACTACCAGTACAAGCATATAG                   
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGT---A-C--A-AGgtatttttct ... tagc
EST: gi|151404135|gb|EV273945.1|EV273945
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGCATATAG                   
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGT---A-C--A-AGgtatttttct ... tagc
EST: gi|16346566|gb|BI972161.1|BI972161
EST:     CTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGCATATAG                   
genomic: CTCCCTCTGACTTTTGCTACAACTACTACCAGT---A-C--A-AGgtatttttct ... tagc
EST: gi|213588695|gb|DB957580.1|DB957580
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAG                         TTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGgtatttttct ... tagcatatagTTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
EST: gi|209728829|gb|BW655471.1|BW655471
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAG                         TTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGgtatttttct ... tagcatatagTTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
EST: gi|192307448|gb|FK000776.1|FK000776
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGCATATAG                   
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGT---A-C--A-AGgtatttttct ... tagc
EST: gi|7692666|gb|AW760767.1|AW760767
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGCATATAG                   
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGT---A-C--A-AGgtatttttct ... tagc
EST: gi|298165802|gb|HO008773.1|HO008773
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAG                         TTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGgtatttttct ... tagcatatagTTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTG
EST: gi|8283063|gb|BE020624.1|BE020624
EST:     AGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGATAG                      
genomic: AGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTAC---A-AGgtatttttct ... tagcata
EST: gi|120491353|gb|EH219520.1|EH219520
EST:     CACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGCATATAG                   
genomic: CACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGT---A-C--A-AGgtatttttct ... tagc
EST: gi|298163642|gb|HO012375.1|HO012375
EST:     AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGTACAAGCATATAG                   
genomic: AAAGCACTTTTCCTCCCTCTGACTTTTGCTACAACTACTACCAGT---A-C--A-AGgtatttttct ... tagc


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagatttggtgctgtctgtgattggtttgtaaaatatattctgcttagcatatagTTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTGTGAGATCTGCTTCAACATTCAGAAATTGGATTTCGAGGGACCCGAATTC
                                      ttctgctt  CT-rich tract
                         tttgtaaaatatattc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcatgttgaactaagtattgttttgctccattctttactttttgaagatttggtgctgtctgtgattggtttgtaaaatatattctgcttagcatatagTTGGAATGGCTCGATTTTCATTGGATGAGATATCAGACACTGGTGCCTTTGTGAGATCTGCTTCAACATTCAGAAATTGGATTTCGAGGGACCCGAATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
-tcatgtt
- - - - - - - - - - - - tgctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg